ONT Isoform Functional Annotation (superseded)

Barcode 20 functional annotation

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Type

CWL

Status

succeeded

Engine

cwltool

Duration

1.4 h

Source Data

Study	Strain-specific cortex gene expression and isoform usage
Sample prep	PCR-cDNA barcoding library preparation for C57/DBA mouse RNA (run 3, bc10-15) 2023-05-09
Sequencing	Nanopore PCR-cDNA sequencing of C57/DBA mouse RNA (run 3) 2023-05-12
Run Data	Run #63 (6 samples)
Samples	C57_rep1_bc10 C57_rep2_bc11 C57_rep3_bc12 DBA_rep1_bc13 DBA_rep2_bc14 DBA_rep3_bc15

Pipeline

ONT Long-Read Transcriptomics (IsoQuant)

Run #42

succeeded

ONT Isoform Functional Annotation (superseded)

Run #49 (this run)

succeeded 1 sources

Combined From

#42 — ONT Long-Read Transcriptomics (IsoQuant) succeeded

Sample Provenance

Process Chain

Dissection and collection of tissue from 10-week-old male mice (C57/BL6J and DBA/2J) (2016-10-17) Labbook

Protocol: Dissection and collection of tissue from 10-week-old male mice

8 samples produced

Dissection and collection of tissue from 10-week-old male mice (C57/BL6J and DBA/2J) continued (2016-10-17) Labbook

Protocol: Dissection and collection of tissue from 10-week-old male mice

24 samples produced

Simultaneous extraction of DNA and RNA from C57 and DBA cortex tissue using Qiagen AllPrep (2016-11-17) Labbook

Protocol: Simultaneous DNA and RNA extraction from animal tissues using QIAGEN AllPrep DNA/RNA Mini Kit

16 samples produced

PCR-cDNA barcoding library preparation for C57/DBA mouse RNA (SQK-PCB111.24) (2023-03-13) Labbook

Protocol: PCR-cDNA Barcoding sequencing library preparation (SQK-PCB111.24)

6 samples produced

Fragment Analyzer analysis of C57/DBA PCR-cDNA libraries (pre-selection) (2023-03-14) Labbook

24 measurements across 6 samples

PCR-cDNA barcoding library preparation for C57/DBA mouse RNA (run 3, bc10-15) (2023-05-09) Labbook

Protocol: PCR-cDNA Barcoding sequencing library preparation (SQK-PCB111.24)

6 samples produced

Nanopore PCR-cDNA sequencing of C57/DBA mouse RNA (run 3) (2023-05-12) Labbook

QC Measurements

Fragment Analyzer analysis of C57/DBA PCR-cDNA libraries (pre-selection)

2023-03-14 Labbook

Sample	bp	count	ng/µL	nmol/L
C57_rep1_bc19	1493	3	5.6008	6.1563
C57_rep2_bc20	1493	4	6.2061	7.4416
C57_rep3_bc21	1485	3	5.7241	6.8672
DBA_rep1_bc22	1500	2	4.2355	4.4695
DBA_rep2_bc23	1485	2	4.0452	4.2648
DBA_rep3_bc24	1485	2	4.3327	4.7107

Workflow

ONT Isoform Functional Annotation

#cwl

Software Tools

Tool	Version	URL
cwltool	-	https://github.com/common-workflow-language/cwltool
eldudy007_isoseq:1.0.sif	-	-

Results Summary

Unique Reads

374,245

from upstream transcriptomics

rRNA Reads

337 (0.1%)

mRNA Reads

373,908

used for CPM calculation

Transcripts Annotated

10,379

Pfam Hit Rate

94.3%

SwissProt Hit Rate

95.2%

High-Confidence

7,780 (75.0%)

Tier 1–2

NMD Candidates

261 (2.5%)

Evidence Tier Distribution

Novel Isoform Discovery

Total Isoforms

10,379

Reference

9,557

Novel (IsoQuant)

822

815 with ≥3 reads, 7 low-support

Novel %

7.9%

DV Genes: Novel-Created

231

Variation only from novel isoforms

DV Genes: Novel-Contributed

Novel isoforms add to existing ref variation

DV Genes: Reference-Only

549

Variation from reference annotation alone

Long-read sequencing discovered 822 novel isoforms (7.9%). Of 838 domain variant genes, 231 (28%) show domain architecture variation only because of novel isoforms not present in the reference annotation. In 5 DV genes, only novel isoforms produced detectable ORFs.

Isoform Read Support (CPM from upstream transcriptomics)

Novel Expression Rate

100.0%

822 / 822 (815 with ≥3 reads)

Reference Expression Rate

95.1%

9,087 / 9,557

Novel Median CPM

16.1

median 5 reads (mean 10.8, range 0–399)

Ref Median CPM

13.4

Novel (n=822)

Reference (n=9,557)

Box plots show median (line), IQR (box), and 1.5×IQR whiskers. Individual isoform CPM values are overlaid as jittered points. Log₁₀ scale; dashed line marks CPM = 1 expression threshold. Per-model CPM from OUT.transcript_model_counts.tsv

Novel Isoform Functional Impact

Domain Altered

10.7% of novel

NMD Candidates

7.3% of novel

ORF Disrupted

105

12.8% of novel

Conserved

542

65.9% — same protein

783 of 822 novel isoforms (95.3%) have SwissProt protein homologs. 27 isoforms have no detectable protein homolog. Top species: Mus musculus (671), Homo sapiens (43), Bos taurus (34), Rattus norvegicus (28), Xenopus tropicalis (2).

High-Impact Novel Isoforms (150)

Gene	Impact	Details	ORF	Reads	CPM	SwissProt
Chn1 `transcript1003.2.nic`	Domain altered	Lost: zf-RING_9	complete	117	312.9	sp\|P30337\|CHIN_RAT 99.6% — N-chimaerin
TUBB2A `transcript224.13.nnic`	Domain altered	Lost: Tubulin_C	complete	38	101.6	sp\|P09203\|TBB1_CHICK 99.4% — Tubulin beta-1 chain
Bin1 `transcript171.18.nnic`	Domain altered	Lost: CK2S, DUF1664, Jnk-SapK_ap_N, OmpH, PTS_IIA, SNARE-fusion, TBD	complete	36	96.3	sp\|O08539\|BIN1_MOUSE 93.9% — Myc box-dependent-interacting ...
RBBP4 `transcript1186.4.nic`	Domain altered	Lost: Hexon	complete	31	82.9	sp\|Q3MHL3\|RBBP4_BOVIN 95.5% — Histone-binding protein RBBP4
Grb14 `transcript906.2.nic`	Domain altered	Lost: BPS, PH, Ubiquitin	complete	30	80.2	sp\|Q9JLM9\|GRB14_MOUSE 88.3% — Growth factor receptor-bound p...
Psmb10 `transcript1437.8.nic`	Domain altered	Gained: 6PGD_C	complete	21	56.2	sp\|O35955\|PSB10_MOUSE 100.0% — Proteasome subunit beta type-1...
Polb `transcript179.8.nnic`	Domain altered	Lost: HHH, WSN	complete	20	53.5	sp\|Q8K409\|DPOLB_MOUSE 100.0% — DNA polymerase beta
Nsg1 `transcript474.5.nic`	Domain altered	Gained: DUF1581, DUF2448, DUF535	complete	19	50.8	sp\|Q62092\|NSG1_MOUSE 100.0% — Neuronal vesicle trafficking-a...
Shisa4 `transcript1106.1.nnic`	Domain altered	Gained: Membrane_trans, TadB_TadC_N	complete	16	42.8	sp\|Q8CA71\|SHSA4_MOUSE 100.0% — Protein shisa-4
Cd81 `transcript2887.7.nnic`	Domain altered	Lost: DUF6768	complete	14	37.4	sp\|P35762\|CD81_MOUSE 100.0% — CD81 antigen
Sarnp `transcript1632.10.nnic`	Domain altered	Lost: HTH, HeH	complete	13	34.8	sp\|Q9D1J3\|SARNP_MOUSE 100.0% — SAP domain-containing ribonucl...
Cdc123 `transcript28.2.nnic`	Domain altered	Lost: Beta_propeller	complete	13	34.8	sp\|Q8CII2\|CD123_MOUSE 87.5% — Translation initiation factor ...
CPLX2 `transcript468.13.nnic`	Domain altered	Lost: DUF2838	complete	13	34.8	sp\|P84088\|CPLX2_BOVIN 100.0% — Complexin-2
Tpt1 `transcript1060.14.nnic`	Domain altered	Lost: DUF6613	complete	12	32.1	sp\|P63028\|TCTP_MOUSE 100.0% — Translationally-controlled tum...
Araf `transcript268.X.nnic`	Domain altered	Lost: PKinase	complete	12	32.1	sp\|P04627\|ARAF_MOUSE 100.0% — Serine/threonine-protein kinas...
Khdrbs3 `transcript344.15.nnic`	Domain altered	Lost: FSA_C, STAR_dimer	complete	11	29.4	sp\|Q9R226\|KHDR3_MOUSE 100.0% — KH domain-containing, RNA-bind...
Laptm4a `transcript49.12.nnic`	Domain altered	Lost: Circovir2_Orf4	complete	11	29.4	sp\|Q60961\|LAP4A_MOUSE 100.0% — Lysosomal-associated transmemb...
Coq2 `transcript863.5.nic`	Domain altered	Lost: DUF2798	complete	11	29.4	sp\|Q66JT7\|COQ2_MOUSE 100.0% — 4-hydroxybenzoate polyprenyltr...
Bax `transcript1282.7.nnic`	Domain altered	Lost: CF222	complete	10	26.7	sp\|Q07813\|BAX_MOUSE 100.0% — Apoptosis regulator BAX
Nap1l1 `transcript1259.10.nnic`	Domain altered	Gained: SH3, TPR	complete	9	24.1	sp\|P28656\|NP1L1_MOUSE 99.4% — Nucleosome assembly protein 1-...
Ubc `transcript1481.5.nnic`	Domain altered	Gained: DUF6393	complete	9	24.1	sp\|P0CG50\|UBC_MOUSE 100.0% — Polyubiquitin-C
Idh3B `transcript1712.2.nnic`	Domain altered	Lost: P-loop_NTPase	complete	9	24.1	sp\|Q68FX0\|IDH3B_RAT 89.1% — Isocitrate dehydrogenase [NAD]...
Dctn6 `transcript278.8.nic`	Domain altered	Lost: Fucokinase	complete	9	24.1	sp\|Q9WUB4\|DCTN6_MOUSE 100.0% — Dynactin subunit 6
Tpd52l2 `transcript2886.2.nic`	Domain altered	Lost: DUF4164, Glyco_hydro_36, P-loop_NTPase, VBS-like	complete	9	24.1	sp\|Q9CYZ2\|TPD54_MOUSE 87.3% — Tumor protein D54
Gnptg `transcript401.17.nic`	Domain altered	Lost: AltA1	complete	9	24.1	sp\|Q6S5C2\|GNPTG_MOUSE 100.0% — N-acetylglucosamine-1-phosphot...
Snap47 `transcript837.11.nnic`	Domain altered	Lost: DUF16, DUF5089	complete	9	24.1	sp\|Q8R570\|SNP47_MOUSE 100.0% — Synaptosomal-associated protei...
Pacrg `transcript84.17.nic`	Domain altered	Gained: Peptidase_PA, RNA_pol_Rpb2_2	complete	9	24.1	sp\|Q9DAK2\|PACRG_MOUSE 100.0% — Parkin coregulated gene protei...
Acd `transcript1398.8.nic`	Domain altered	Gained: OGFr_III	complete	8	21.4	sp\|Q5EE38\|ACD_MOUSE 100.0% — Adrenocortical dysplasia prote...
Thoc7 `transcript42.14.nnic`	Domain altered	Gained: Pec_lyase-like, Tup_N, V_ATPase_I	complete	8	21.4	sp\|Q7TMY4\|THOC7_MOUSE 100.0% — THO complex subunit 7 homolog
Sap30bp `transcript2579.11.nnic`	Domain altered	Gained: CCDC84	complete	7	18.7	sp\|Q02614\|S30BP_MOUSE 94.8% — SAP30-binding protein
Chmp3 `transcript584.6.nic`	Domain altered	Lost: SPOUT	complete	7	18.7	sp\|Q9CQ10\|CHMP3_MOUSE 100.0% — Charged multivesicular body pr...
Kxd1 `transcript655.8.nnic`	Domain altered	Lost: TolA_bind_tri	complete	7	18.7	sp\|Q80XH1\|KXDL1_MOUSE 71.2% — KxDL motif-containing protein ...
Mrps15 `transcript1063.4.nic`	Domain altered	Lost: GPS2_interact	complete	6	16.1	sp\|Q9DC71\|RT15_MOUSE 100.0% — Small ribosomal subunit protei...
Uchl5 `transcript1153.1.nic`	Domain altered +NMD	Gained: BBP1_C	complete	6	16.1	sp\|Q9WUP7\|UCHL5_MOUSE 100.0% — Ubiquitin carboxyl-terminal hy...
Nap1l1 `transcript1263.10.nnic`	Domain altered	Gained: Nucleoplasmin	complete	6	16.1	sp\|P28656\|NP1L1_MOUSE 99.0% — Nucleosome assembly protein 1-...
Rbck1 `transcript2136.2.nnic`	Domain altered	Lost: Rad50_zn_hook, Ubiquitin, zf-RanBP	complete	6	16.1	sp\|Q9WUB0\|HOIL1_MOUSE 97.7% — RanBP-type and C3HC4-type zinc...
Nsmce1 `transcript2253.7.nnic`	Domain altered	Gained: AbiJ_NTD3, TMEMspv1-c74-12, TraH	complete	6	16.1	sp\|Q9D720\|NSE1_MOUSE 95.1% — Non-structural maintenance of ...
Eef1e1 `transcript339.13.nnic`	Domain altered	Lost: GST_C	complete	6	16.1	sp\|Q9D1M4\|MCA3_MOUSE 81.6% — Eukaryotic translation elongat...
Sirt5 `transcript364.13.nic`	Domain altered	Lost: Herpes_LMP1	complete	6	16.1	sp\|Q8K2C6\|SIR5_MOUSE 100.0% — NAD-dependent protein deacylas...
Thoc7 `transcript44.14.nnic`	Domain altered	Gained: Pec_lyase-like, Tup_N, V_ATPase_I	complete	6	16.1	sp\|Q7TMY4\|THOC7_MOUSE 100.0% — THO complex subunit 7 homolog
Sharpin `transcript491.15.nic`	Domain altered	Lost: Emfourin, PH	complete	6	16.1	sp\|Q91WA6\|SHRPN_MOUSE 100.0% — Sharpin
TRA2B `transcript516.16.nnic`	Domain altered	Gained: NPR	complete	6	16.1	sp\|Q3ZBT6\|TRA2B_BOVIN 100.0% — Transformer-2 protein homolog ...
Pbx4 `transcript542.8.nic`	Domain altered	Lost: Carbpep_Y_N, DUF1479, HTH, P-loop_NTPase, YdaS_antitoxin	complete	6	16.1	sp\|Q99NE9\|PBX4_MOUSE 36.5% — Pre-B-cell leukemia transcript...
Plekhj1 `transcript869.10.nic`	Domain altered	Gained: Pinin_SDK_N	complete	6	16.1	sp\|Q9D240\|PKHJ1_MOUSE 92.7% — Pleckstrin homology domain-con...
Setd3 `transcript1007.12.nic`	Domain altered	Lost: OB_enterotoxin	complete	5	13.4	sp\|Q91WC0\|SETD3_MOUSE 100.0% — Actin-histidine N-methyltransf...
Pard6a `transcript1421.8.nic`	Domain altered	Lost: Ubiquitin	complete	5	13.4	sp\|Q9Z101\|PAR6A_MOUSE 100.0% — Partitioning defective 6 homol...
Ckmt1 `transcript1530.2.nnic`	Domain altered	Gained: DUF5973	complete	5	13.4	sp\|P30275\|KCRU_MOUSE 100.0% — Creatine kinase U-type, mitoch...
Poc1a `transcript1683.9.nnic`	Domain altered	Lost: NTN, Nup160	complete	5	13.4	sp\|Q8JZX3\|POC1A_MOUSE 100.0% — POC1 centriolar protein homolo...
Me3 `transcript1695.7.nic`	Domain altered	Lost: NADP_Rossmann	complete	5	13.4	sp\|Q8BMF3\|MAON_MOUSE 100.0% — NADP-dependent malic enzyme, m...
Snf8 `transcript1859.11.nic`	Domain altered	Lost: Phage_Mu_Gam, Plasmid_RAQPRD, RPA_interact_C, ZapD	complete	5	13.4	sp\|Q9CZ28\|SNF8_MOUSE 100.0% — Vacuolar-sorting protein SNF8
Hey1 `transcript32.3.nic`	Domain altered	Lost: HTH	complete	5	13.4	sp\|Q9WV93\|HEY1_MOUSE 99.6% — Hairy/enhancer-of-split relate...
Bcap31 `transcript473.X.nnic`	Domain altered	Gained: DoxD-like, GT-C, LMBR1	complete	5	13.4	sp\|Q61335\|BAP31_MOUSE 100.0% — B-cell receptor-associated pro...
Iqcb1 `transcript710.16.nic`	Domain altered	Lost: MLD	complete	5	13.4	sp\|Q8BP00\|IQCB1_MOUSE 100.0% — IQ calmodulin-binding motif-co...
Cops4 `transcript859.5.nic`	Domain altered	Lost: YabA	complete	5	13.4	sp\|O88544\|CSN4_MOUSE 100.0% — COP9 signalosome complex subun...
Kcnmb4 `transcript1288.10.nnic`	Domain altered +NMD	Lost: LapA_dom	complete	4	10.7	sp\|Q9JIN6\|KCMB4_MOUSE 100.0% — Calcium-activated potassium ch...
Nme7 `transcript1314.1.nnic`	Domain altered	Lost: PH	complete	4	10.7	sp\|Q9QXL8\|NDK7_MOUSE 100.0% — Nucleoside diphosphate kinase ...
Dnajb4 `transcript1391.3.nnic`	Domain altered	Lost: Chaperone-J	complete	4	10.7	sp\|Q9D832\|DNJB4_MOUSE 100.0% — DnaJ homolog subfamily B membe...
Htatip2 `transcript1407.7.nnic`	Domain altered	Lost: Periplas_BP	complete	4	10.7	sp\|Q9Z2G9\|HTAI2_MOUSE 100.0% — Protein HTATIP2
Bfar `transcript161.16.nic`	Domain altered	Gained: DUF2076	complete	4	10.7	sp\|Q8R079\|BFAR_MOUSE 99.7% — Bifunctional apoptosis regulat...
Blvra `transcript1636.2.nnic`	Domain altered	Lost: NADP_Rossmann, SAM	complete	4	10.7	sp\|Q9CY64\|BIEA_MOUSE 100.0% — Biliverdin reductase A
Mthfsd `transcript1658.8.nic`	Domain altered	Lost: RRM	complete	4	10.7	sp\|Q2M296\|MTHSD_HUMAN 89.7% — Methenyltetrahydrofolate synth...
Polb `transcript177.8.nnic`	Domain altered	Lost: HHH, WSN	complete	4	10.7	sp\|Q8K409\|DPOLB_MOUSE 100.0% — DNA polymerase beta
Bpgm `transcript203.6.nnic`	Domain altered	Lost: HTH	complete	4	10.7	sp\|P15327\|PMGE_MOUSE 100.0% — Bisphosphoglycerate mutase
Myl4 `transcript2329.11.nnic`	Domain altered	Gained: HTH	complete	4	10.7	sp\|P09541\|MYL4_MOUSE 100.0% — Myosin light chain 4
Araf `transcript280.X.nic`	Domain altered	Lost: PKinase	complete	4	10.7	sp\|P04627\|ARAF_MOUSE 100.0% — Serine/threonine-protein kinas...
Gstt1 `transcript575.10.nnic`	Domain altered	Lost: GST_C	complete	4	10.7	sp\|Q64471\|GSTT1_MOUSE 75.4% — Glutathione S-transferase thet...
Rnf181 `transcript615.6.nnic`	Domain altered	Lost: BIR-like, C2H2-zf, Rad50_zn_hook	complete	4	10.7	sp\|Q9CY62\|RN181_MOUSE 84.8% — E3 ubiquitin-protein ligase RN...
Fastkd3 `transcript786.13.nic`	Domain altered	Lost: FAST_2, TPR	complete	4	10.7	sp\|Q8BSN9\|FAKD3_MOUSE 100.0% — FAST kinase domain-containing ...
Cers2 `transcript815.3.nic`	Domain altered	Lost: HTH, TRAM1, UPF0767	complete	4	10.7	sp\|Q924Z4\|CERS2_MOUSE 100.0% — Ceramide synthase 2
Tmem106c `transcript1064.15.nic`	Domain altered	Lost: CfAFP, DnaJ_CRD, E-set, La_HTH_kDCL	complete	3	8.0	sp\|Q80VP8\|T106C_MOUSE 100.0% — Transmembrane protein 106C
Psmb10 `transcript1438.8.nic`	Domain altered	Gained: 6PGD_C	complete	3	8.0	sp\|O35955\|PSB10_MOUSE 100.0% — Proteasome subunit beta type-1...
Slc7a6os `transcript1452.8.nic`	Domain altered	Gained: Nop14	complete	3	8.0	sp\|Q7TPE5\|S7A6O_MOUSE 100.0% — Probable RNA polymerase II nuc...
Ccdc136 `transcript146.6.nic`	Domain altered	Lost: ERM_helical, FAP206, Lectin_N, Phlebovirus_NSM, YabA	complete	3	8.0	sp\|Q3TVA9\|CC136_MOUSE 100.0% — Coiled-coil domain-containing ...
Ubc `transcript1470.5.nnic`	Domain altered	Gained: DUF6393	complete	3	8.0	sp\|P0CG50\|UBC_MOUSE 100.0% — Polyubiquitin-C
Polb `transcript172.8.nnic`	Domain altered	Lost: HHH, WSN	complete	3	8.0	sp\|Q8K409\|DPOLB_MOUSE 100.0% — DNA polymerase beta
Prepl `transcript1835.17.nic`	Domain altered	Lost: AB_hydrolase	complete	3	8.0	sp\|Q8C167\|PPCEL_MOUSE 100.0% — Prolyl endopeptidase-like
Tpd52l2 `transcript2893.2.nnic`	Domain altered	Lost: DUF4164, Glyco_hydro_36, P-loop_NTPase, VBS-like	complete	3	8.0	sp\|Q9CYZ2\|TPD54_MOUSE 87.4% — Tumor protein D54
Fbxw5 `transcript307.2.nic`	Domain altered	Lost: F-box	complete	3	8.0	sp\|Q9QXW2\|FBXW5_MOUSE 99.8% — F-box/WD repeat-containing pro...
Trappc6b `transcript363.12.nnic`	Domain altered	Gained: 4H_Cytokine	complete	3	8.0	sp\|Q9D289\|TPC6B_MOUSE 82.3% — Trafficking protein particle c...
Parl `transcript450.16.nnic`	Domain altered	Lost: Caps_synth_CapC	complete	3	8.0	sp\|Q5XJY4\|PARL_MOUSE 100.0% — Presenilin-associated rhomboid...
KCTD17 `transcript623.15.nnic`	Domain altered	Lost: Peptidase_MA Gained: Rrn6, SMN	complete	3	8.0	sp\|Q8N5Z5\|KCD17_HUMAN 72.9% — BTB/POZ domain-containing prot...
Cibar1 `transcript64.4.nnic`	Domain altered	Lost: DUF6447, P4Ha_N, Pec_lyase-like, Syntaxin-6_N	complete	3	8.0	sp\|Q8BP22\|CBAR1_MOUSE 97.8% — CBY1-interacting BAR domain-co...
Iqcb1 `transcript709.16.nic`	Domain altered	Lost: MLD	complete	3	8.0	sp\|Q8BP00\|IQCB1_MOUSE 100.0% — IQ calmodulin-binding motif-co...
Ankrd16 `transcript86.2.nic`	Domain altered +NMD	Gained: Peptidase_MA	complete	3	8.0	sp\|A2AS55\|ANR16_MOUSE 97.9% — Ankyrin repeat domain-containi...
Nipsnap1 `transcript92.11.nic`	Domain altered	Lost: DUF2748	complete	3	8.0	sp\|O55125\|NIPS1_MOUSE 99.3% — Protein NipSnap homolog 1
Tvp23b `transcript966.11.nic`	Domain altered	Lost: TMEM192	complete	3	8.0	sp\|Q9D8T4\|TV23B_MOUSE 100.0% — Golgi apparatus membrane prote...
Tmem175 `transcript993.5.nic`	Domain altered	Lost: Yip1	complete	3	8.0	sp\|Q9CXY1\|TM175_MOUSE 100.0% — Endosomal/lysosomal proton cha...
Morf4l1 `transcript1546.9.nic`	Domain altered	Lost: SH3	complete	2	5.4	sp\|Q6AYU1\|MO4L1_RAT 99.6% — Mortality factor 4-like protei...
Mbp `transcript909.18.nnic`	ORF disrupted		5prime_partial	159	425.2	—
YWHAE `transcript1389.11.nic`	ORF disrupted	Lost: Ta0938	5prime_partial	77	205.9	sp\|P62261\|1433E_BOVIN 100.0% — 14-3-3 protein epsilon
Stx4 `transcript2543.7.nic`	ORF disrupted	Lost: COG2, Csm1_N, DUF3671, DUF3698, E-set, ETRAMP, His_Kinase_A, PRP1_N, T2SSF, TPR, TPR_MLP1_2, Vac_Fusion Gained: GOLD-like	3prime_partial	52	139.1	sp\|P70452\|STX4_MOUSE 100.0% — Syntaxin-4
Cops7a `transcript1359.6.nic`	ORF disrupted		5prime_partial	51	136.4	sp\|Q9CZ04\|CSN7A_MOUSE 100.0% — COP9 signalosome complex subun...
Stoml2 `transcript333.4.nic`	ORF disrupted		5prime_partial	44	117.7	sp\|Q99JB2\|STML2_MOUSE 100.0% — Stomatin-like protein 2, mitoc...
HPCA `transcript1148.4.nic`	ORF disrupted		3prime_partial	37	99.0	sp\|Q4PL64\|HPCA_BOVIN 100.0% — Neuron-specific calcium-bindin...
Rpn2 `transcript2346.2.nic`	ORF disrupted	Gained: DMT	5prime_partial	30	80.2	sp\|Q9DBG6\|RPN2_MOUSE 99.8% — Dolichyl-diphosphooligosacchar...
Cryzl1 `transcript1016.16.nic`	ORF disrupted		5prime_partial	21	56.2	sp\|Q921W4\|QORL1_MOUSE 100.0% — Quinone oxidoreductase-like pr...
Araf `transcript271.X.nic`	ORF disrupted	Lost: PKinase Gained: Rubredoxin_2	5prime_partial	16	42.8	sp\|P04627\|ARAF_MOUSE 100.0% — Serine/threonine-protein kinas...
Sparcl1 `transcript927.5.nic`	ORF disrupted		3prime_partial	16	42.8	sp\|P70663\|SPRL1_MOUSE 100.0% — SPARC-like protein 1
Araf `transcript278.X.nic`	ORF disrupted	Lost: PKinase Gained: Rubredoxin_2	5prime_partial	15	40.1	sp\|P04627\|ARAF_MOUSE 100.0% — Serine/threonine-protein kinas...
Arhgef25 `transcript1396.10.nic`	ORF disrupted	Gained: Ubiquitin	5prime_partial	14	37.4	sp\|Q9CWR0\|ARHGP_MOUSE 99.6% — Rho guanine nucleotide exchang...
Ntan1 `transcript176.16.nic`	ORF disrupted		5prime_partial	14	37.4	sp\|Q64311\|NTAN1_MOUSE 83.3% — Protein N-terminal asparagine ...
Commd8 `transcript657.5.nnic`	ORF disrupted		5prime_partial	14	37.4	sp\|Q9CZG3\|COMD8_MOUSE 99.4% — COMM domain-containing protein...
Cuedc2 `transcript1072.19.nnic`	ORF disrupted		3prime_partial	13	34.8	sp\|Q9CXX9\|CUED2_MOUSE 99.2% — CUE domain-containing protein ...
Yif1b `transcript751.7.nic`	ORF disrupted		5prime_partial	12	32.1	sp\|Q9CX30\|YIF1B_MOUSE 95.5% — Protein YIF1B
Atg16l1 `transcript827.1.nic`	ORF disrupted	Lost: ATG16, Fez1, KASH_CCD, Nup160, V_ATPase_I Gained: Peptidase_MD	5prime_partial	12	32.1	sp\|Q8C0J2\|A16L1_MOUSE 100.0% — Autophagy-related protein 16-1
Ephx4 `transcript943.5.nic`	ORF disrupted		5prime_partial	12	32.1	sp\|Q6IE26\|EPHX4_MOUSE 99.0% — Epoxide hydrolase 4
Tsg101 `transcript1389.7.nic`	ORF disrupted	Gained: BLOC1_2, DUF3987, ERM_helical, Exonuc_VII_L	5prime_partial	11	29.4	sp\|Q61187\|TS101_MOUSE 100.0% — Tumor susceptibility gene 101 ...
TXNL4A `transcript768.18.nnic`	ORF disrupted		3prime_partial	11	29.4	—
Kri1 `transcript160.9.nic`	ORF disrupted		5prime_partial	10	26.7	sp\|Q8BGV9\|ATG4D_MOUSE 90.0% — Cysteine protease ATG4D
YPEL3 `transcript2308.7.nic`	ORF disrupted		5prime_partial	10	26.7	sp\|A6QPH8\|YPEL3_BOVIN 100.0% — Protein yippee-like 3
Ccdc106 `transcript111.7.nic`	ORF disrupted	Gained: E-set	5prime_partial	9	24.1	sp\|Q3ULM0\|CC106_MOUSE 100.0% — Coiled-coil domain-containing ...
Rbp4 `transcript911.19.nic`	ORF disrupted		5prime_partial	9	24.1	sp\|Q00724\|RET4_MOUSE 100.0% — Retinol-binding protein 4
Atp5pf `transcript926.16.nnic`	ORF disrupted		5prime_partial	9	24.1	sp\|P97450\|ATP5J_MOUSE 100.0% — ATP synthase peripheral stalk ...
Nat14 `transcript101.7.nnic`	ORF disrupted		5prime_partial	8	21.4	sp\|Q8BVG8\|NAT14_MOUSE 100.0% — Probable N-acetyltransferase 1...
Septin4 `transcript1704.11.nic`	ORF disrupted		5prime_partial	8	21.4	sp\|P28661\|SEPT4_MOUSE 99.6% — Septin-4
Slc39a7 `transcript853.17.nic`	ORF disrupted		3prime_partial	8	21.4	sp\|Q31125\|S39A7_MOUSE 100.0% — Zinc transporter SLC39A7
Nudt19 `transcript1026.7.nnic`	ORF disrupted	Lost: NUDIX Gained: DUF4909	5prime_partial	7	18.7	sp\|P11930\|NUD19_MOUSE 98.2% — Acyl-coenzyme A diphosphatase ...
Pstk `transcript2614.7.nic`	ORF disrupted	Lost: DEAD_assoc, P-loop_NTPase	5prime_partial	7	18.7	sp\|Q8BP74\|PSTK_MOUSE 100.0% — L-seryl-tRNA(Sec) kinase
Tango2 `transcript349.16.nic`	ORF disrupted		5prime_partial	7	18.7	sp\|P54797\|TNG2_MOUSE 100.0% — Transport and Golgi organizati...
P33monox `transcript502.13.nic`	ORF disrupted		5prime_partial	7	18.7	sp\|Q9DBN4\|P33MX_MOUSE 100.0% — Putative monooxygenase p33MONO...
Rtkn `transcript702.6.nic`	ORF disrupted		5prime_partial	7	18.7	sp\|Q8C6B2\|RTKN_MOUSE 95.5% — Rhotekin
Emg1 `transcript1233.6.nic`	ORF disrupted	Gained: MIF	5prime_partial	6	16.1	sp\|O35130\|NEP1_MOUSE 100.0% — Ribosomal RNA small subunit me...
Lin7b `transcript1267.7.nic`	ORF disrupted	Lost: DUF2057 Gained: PDDEXK	5prime_partial	6	16.1	sp\|O88951\|LIN7B_MOUSE 97.1% — Protein lin-7 homolog B
Ckmt1 `transcript1545.2.nnic`	ORF disrupted	Lost: ATP-gua_PtransN	5prime_partial	6	16.1	sp\|P30275\|KCRU_MOUSE 100.0% — Creatine kinase U-type, mitoch...
FIBP `transcript227.19.nic`	ORF disrupted		5prime_partial	6	16.1	sp\|Q9JI19\|FIBP_MOUSE 98.8% — Acidic fibroblast growth facto...
Bcas1 `transcript2574.2.nnic`	ORF disrupted		5prime_partial	6	16.1	sp\|Q80YN3\|BCAS1_MOUSE 85.3% — Breast carcinoma-amplified seq...
Tssc4 `transcript2908.7.nic`	ORF disrupted		5prime_partial	6	16.1	sp\|Q9JHE7\|TSSC4_MOUSE 100.0% — U5 small nuclear ribonucleopro...
Spsb3 `transcript362.17.nic`	ORF disrupted	Lost: SOCS_box	5prime_partial	6	16.1	sp\|Q571F5\|SPSB3_MOUSE 91.5% — SPRY domain-containing SOCS bo...
Ly6h `transcript402.15.nnic`	ORF disrupted		5prime_partial	6	16.1	—
Rtkn `transcript703.6.nic`	ORF disrupted		5prime_partial	6	16.1	sp\|Q8C6B2\|RTKN_MOUSE 100.0% — Rhotekin
Atxn10 `transcript923.15.nic`	ORF disrupted		3prime_partial	6	16.1	sp\|P28658\|ATX10_MOUSE 100.0% — Ataxin-10
Aldh2 `transcript1278.5.nnic`	ORF disrupted	Lost: DUF1235	5prime_partial	5	13.4	sp\|P47738\|ALDH2_MOUSE 100.0% — Aldehyde dehydrogenase, mitoch...
H2AZ1 `transcript1282.3.nic`	ORF disrupted		5prime_partial	5	13.4	sp\|P0C0S4\|H2AZ_BOVIN 100.0% — Histone H2A.Z
Ckmt1 `transcript1534.2.nnic`	ORF disrupted		3prime_partial	5	13.4	sp\|P30275\|KCRU_MOUSE 98.8% — Creatine kinase U-type, mitoch...
Ntan1 `transcript173.16.nnic`	ORF disrupted		5prime_partial	5	13.4	sp\|Q64311\|NTAN1_MOUSE 92.4% — Protein N-terminal asparagine ...
NAA20 `transcript2025.2.nic`	ORF disrupted		5prime_partial	5	13.4	sp\|P61599\|NAA20_HUMAN 96.7% — N-alpha-acetyltransferase 20
Cntfr `transcript214.4.nnic`	ORF disrupted		5prime_partial	5	13.4	sp\|O88507\|CNTFR_MOUSE 100.0% — Ciliary neurotrophic factor re...
Hmox2 `transcript35.16.nic`	ORF disrupted	Lost: DUF349	5prime_partial	5	13.4	sp\|O70252\|HMOX2_MOUSE 100.0% — Heme oxygenase 2
Ankrd37 `transcript364.8.nnic`	ORF disrupted		5prime_partial	5	13.4	sp\|Q569N2\|ANR37_MOUSE 100.0% — Ankyrin repeat domain-containi...
Atp6v1g1 `transcript523.4.nnic`	ORF disrupted	Lost: Borrelia_P83, CSRNP_N, DUF2570, DUF6080, FdhE, MPM1, Muted, OmpH, RNase_Y_N, TPR Gained: CDC14, KxDL	5prime_partial	5	13.4	sp\|P79251\|VATG1_BOVIN 83.3% — V-type proton ATPase subunit G...
Sar1b `transcript570.11.nnic`	ORF disrupted		5prime_partial	5	13.4	sp\|Q9CQC9\|SAR1B_MOUSE 100.0% — Small COPII coat GTPase SAR1B
Ephx4 `transcript942.5.nic`	ORF disrupted		5prime_partial	5	13.4	sp\|Q6IE26\|EPHX4_MOUSE 83.4% — Epoxide hydrolase 4
Esd `transcript1053.14.nic`	ORF disrupted	Lost: Shadoo	5prime_partial	4	10.7	sp\|Q9R0P3\|ESTD_MOUSE 88.3% — S-formylglutathione hydrolase
Amn `transcript1089.12.nic`	ORF disrupted		5prime_partial	4	10.7	sp\|Q99JB7\|AMNLS_MOUSE 100.0% — Protein amnionless
Hpcal1 `transcript111.12.nnic`	ORF disrupted		3prime_partial	4	10.7	sp\|P62748\|HPCL1_MOUSE 100.0% — Hippocalcin-like protein 1
Gabbr1 `transcript1172.17.nnic`	ORF disrupted	Lost: CCDC-167, COX1-like, DUF3995, DUF6377, GPCR_A, Kei1, NEMP, PKcGMP_CC, Periplas_BP, UPF0242	5prime_partial	4	10.7	sp\|Q9WV18\|GABR1_MOUSE 100.0% — Gamma-aminobutyric acid type B...
Clybl `transcript1245.14.nnic`	ORF disrupted		5prime_partial	4	10.7	sp\|Q8R4N0\|CLYBL_MOUSE 100.0% — Citramalyl-CoA lyase, mitochon...
Msrb2 `transcript140.2.nnic`	ORF disrupted	Lost: zinc_ribbon_10	5prime_partial	4	10.7	sp\|Q78J03\|MSRB2_MOUSE 96.6% — Methionine-R-sulfoxide reducta...
Ubc `transcript1477.5.nnic`	ORF disrupted	Lost: CorA-like, GHD, MPT63-MPB63 Gained: 2H, DUF6393, GDYXXLXY, HTH, IT, Phage_sheath_1N, Sde2_N_Ubi, UBA	5prime_partial	4	10.7	sp\|P0CG50\|UBC_MOUSE 100.0% — Polyubiquitin-C
Mrps17 `transcript1529.5.nnic`	ORF disrupted		5prime_partial	4	10.7	sp\|Q9CQE3\|RT17_MOUSE 100.0% — Small ribosomal subunit protei...

Frame Impact Classification

Functional Diversity per Gene

Top Pfam Domains

Domain Architectures per Gene

Annotation QC: Pfam Artifact Detection

Related Pfam families are grouped into clans; proteins with anomalously high domain density (structural protein artifacts) are flagged separately. The cleaned set is used for all downstream analysis.

Original DV Genes

838

After QC Filtering

592

Removed (Artifacts)

246

Flagged Details

147

Flagged Artifacts (147)

Gene	Gene Name	Reason	Arch (raw)	Arch (collapsed)	Core / Variable Domains
`ENSMUSG00000032366`	TPM4	density artifact	6	0	46 / 19
`ENSMUSG00000027940`	Tpm3	density artifact	5	0	43 / 15
`ENSMUSG00000002985`	Apoe	density artifact	4	0	40 / 13
`ENSMUSG00000014402`	Tsg101	density artifact	3	0	38 / 5
`ENSMUSG00000026833`	Olfm1	density artifact	3	0	38 / 6
`ENSMUSG00000078941`	Ak6	density artifact	2	0	38 / 0
`ENSMUSG00000026761`	Orc4	density artifact	2	0	52 / 0
`ENSMUSG00000027273`	SNAP25	density artifact	2	0	32 / 0
`ENSMUSG00000052033`	PFDN4	density artifact	2	0	50 / 0
`ENSMUSG00000026927`	Entr1	density artifact	2	0	28 / 0
`ENSMUSG00000019303`	Psmc3ip	density artifact	2	0	71 / 0
`ENSMUSG00000069208`	Znf431	density artifact	2	0	29 / 0
`ENSMUSG00000027506`	Tpd52	density artifact	2	0	37 / 0
`ENSMUSG00000129504`	Nefm	density artifact	2	0	33 / 0
`ENSMUSG00000031851`	Ntpcr	density artifact	2	0	41 / 0
`ENSMUSG00000021832`	PSMC6	density artifact	2	0	38 / 0
`ENSMUSG00000059689`	Znf32	density artifact	2	0	40 / 0
`ENSMUSG00000030805`	Stx4	density artifact	2	0	31 / 0
`ENSMUSG00000055835`	Zfp1	density artifact	2	0	40 / 0
`ENSMUSG00000030603`	Psmc4	density artifact	2	0	38 / 0
`ENSMUSG00000026966`	Ssna1	density artifact	1	0	55 / 0
`ENSMUSG00000019370`	CALM1	density artifact	1	0	30 / 0
`ENSMUSG00000020486`	Septin4	clan collapse	4	1	13 / 3
`ENSMUSG00000024217`	Snrpc	clan collapse	3	1	2 / 1
`ENSMUSG00000039450`	Dcxr	clan collapse	3	1	12 / 1
`ENSMUSG00000034209`	Rasl10a	clan collapse	3	1	4 / 3
`ENSMUSG00000022474`	Pmm1	clan collapse	2	1	3 / 0
`ENSMUSG00000029166`	Mapre3	clan collapse	2	1	4 / 0
`ENSMUSG00000063235`	Ptpmt1	clan collapse	2	1	5 / 0
`ENSMUSG00000020386`	Sar1b	clan collapse	2	1	9 / 0
`ENSMUSG00000032475`	Nck1	clan collapse	2	1	8 / 0
`ENSMUSG00000023913`	Pla2g7	clan collapse	2	1	13 / 0
`ENSMUSG00000013622`	Atraid	clan collapse	2	1	4 / 0
`ENSMUSG00000002524`	Puf60	clan collapse	2	1	5 / 0
`ENSMUSG00000022635`	Zcrb1	clan collapse	2	1	6 / 0
`ENSMUSG00000031641`	Cbr4	clan collapse	2	1	6 / 0
`ENSMUSG00000007458`	M6pr	clan collapse	2	1	3 / 0
`ENSMUSG00000142170`	Ppp2r3c	clan collapse	2	1	5 / 0
`ENSMUSG00000030512`	SNRPA1	clan collapse	2	1	4 / 0
`ENSMUSG00000063229`	Ldha	clan collapse	2	1	4 / 0
`ENSMUSG00000090841`	Myl6	clan collapse	2	1	6 / 0
`ENSMUSG00000038671`	Arfrp1	clan collapse	2	1	9 / 0
`ENSMUSG00000030298`	Sec13	clan collapse	2	1	5 / 0
`ENSMUSG00000042729`	Wdr74	clan collapse	2	1	4 / 0
`ENSMUSG00000045211`	Nudt18	clan collapse	2	1	2 / 0
`ENSMUSG00000021548`	Ccnh	clan collapse	2	1	3 / 0
`ENSMUSG00000058240`	Cryzl1	clan collapse	2	1	2 / 1
`ENSMUSG00000030701`	Plekhb1	clan collapse	2	1	3 / 0
`ENSMUSG00000036820`	Amdhd2	clan collapse	2	1	2 / 0
`ENSMUSG00000027634`	Ndrg3	clan collapse	2	1	2 / 1
`ENSMUSG00000051730`	Mettl5	clan collapse	2	1	23 / 0
`ENSMUSG00000039826`	Trub2	clan collapse	2	1	8 / 0
`ENSMUSG00000032540`	Abhd5	clan collapse	2	1	5 / 0
`ENSMUSG00000038286`	Bphl	clan collapse	2	1	11 / 1
`ENSMUSG00000021772`	Nkiras1	clan collapse	2	1	9 / 0
`ENSMUSG00000023175`	Bsg	clan collapse	2	1	11 / 0
`ENSMUSG00000037062`	Sh3glb1	clan collapse	2	1	6 / 1
`ENSMUSG00000059974`	Ntm	clan collapse	2	1	12 / 0
`ENSMUSG00000031197`	Vbp1	clan collapse	2	1	2 / 0
`ENSMUSG00000116165`	Pdxp	clan collapse	2	1	5 / 0
`ENSMUSG00000002778`	Kdelr1	clan collapse	2	1	2 / 0
`ENSMUSG00000029641`	Rasl11a	clan collapse	2	1	6 / 0
`ENSMUSG00000020873`	Slc35b1	clan collapse	2	1	5 / 0
`ENSMUSG00000028969`	CDK5	clan collapse	2	1	7 / 0
`ENSMUSG00000029203`	UBE2K	clan collapse	2	1	6 / 0
`ENSMUSG00000073423`	Znf414	clan collapse	2	1	6 / 1
`ENSMUSG00000020309`	Chac2	clan collapse	2	1	2 / 0
`ENSMUSG00000039163`	Cmc1	clan collapse	2	1	7 / 0
`ENSMUSG00000052752`	TRAF7	clan collapse	2	1	25 / 0
`ENSMUSG00000000253`	Gmpr	clan collapse	2	1	1 / 3
`ENSMUSG00000021877`	Arf4	clan collapse	2	1	10 / 0
`ENSMUSG00000021852`	Slc35f4	clan collapse	2	1	2 / 0
`ENSMUSG00000032336`	Nptn	clan collapse	2	1	10 / 0
`ENSMUSG00000020390`	UBE2B	clan collapse	2	1	3 / 0
`ENSMUSG00000017715`	Pgs1	clan collapse	2	1	3 / 0
`ENSMUSG00000000184`	Ccnd2	clan collapse	2	1	1 / 2
`ENSMUSG00000031812`	Map1lc3b	clan collapse	2	1	3 / 0
`ENSMUSG00000001833`	Septin7	clan collapse	2	1	16 / 0
`ENSMUSG00000061322`	Dnai1	clan collapse	2	1	3 / 0
`ENSMUSG00000004933`	Matk	clan collapse	2	1	9 / 2
`ENSMUSG00000004032`	Gstm5	clan collapse	2	1	6 / 0
`ENSMUSG00000059970`	Hspa2	clan collapse	2	1	10 / 0
`ENSMUSG00000025939`	Ube2w	clan collapse	2	1	3 / 0
`ENSMUSG00000052456`	Get3	clan collapse	2	1	15 / 0
`ENSMUSG00000035198`	Tubg1	clan collapse	2	1	4 / 0
`ENSMUSG00000028032`	Papss1	clan collapse	2	1	14 / 0
`ENSMUSG00000015806`	Qdpr	clan collapse	2	1	5 / 0
`ENSMUSG00000028099`	Polr3c	clan collapse	2	1	3 / 0
`ENSMUSG00000038975`	Rabggtb	clan collapse	2	1	3 / 0
`ENSMUSG00000056367`	Actr3b	clan collapse	2	1	5 / 0
`ENSMUSG00000078923`	Ube2v1	clan collapse	2	1	2 / 0
`ENSMUSG00000068250`	Amn1	clan collapse	2	1	3 / 1
`ENSMUSG00000026632`	Tatdn3	clan collapse	2	1	2 / 0
`ENSMUSG00000029538`	Srsf9	clan collapse	2	1	5 / 0
`ENSMUSG00000078765`	U2af1l4	clan collapse	2	1	7 / 0
`ENSMUSG00000025731`	Mettl26	clan collapse	2	1	6 / 1
`ENSMUSG00000069835`	Sat2	clan collapse	2	1	8 / 0
`ENSMUSG00000030815`	Phkg2	clan collapse	2	1	14 / 0
`ENSMUSG00000046434`	HNRNPA1	clan collapse	2	1	6 / 0
`ENSMUSG00000045136`	TUBB2B	clan collapse	2	1	3 / 0
`ENSMUSG00000027176`	Cstf3	clan collapse	2	1	8 / 0
`ENSMUSG00000044628`	Rnf208	clan collapse	2	1	10 / 0
`ENSMUSG00000017307`	Acot8	clan collapse	2	1	3 / 0
`ENSMUSG00000053565`	Eif3k	clan collapse	2	1	1 / 2
`ENSMUSG00000024516`	Sec11c	clan collapse	2	1	2 / 0
`ENSMUSG00000037373`	Ctbp1	clan collapse	2	1	6 / 0
`ENSMUSG00000016637`	Ift27	clan collapse	2	1	7 / 0
`ENSMUSG00000022570`	Gfus	clan collapse	2	1	6 / 0
`ENSMUSG00000053137`	Mapk11	clan collapse	2	1	8 / 0
`ENSMUSG00000033862`	Cdk10	clan collapse	2	1	8 / 0
`ENSMUSG00000033931`	Rbm34	clan collapse	2	1	7 / 0
`ENSMUSG00000101892`	—	clan collapse	2	1	10 / 0
`ENSMUSG00000020385`	Clk4	clan collapse	2	1	5 / 0
`ENSMUSG00000040532`	Abhd11	clan collapse	2	1	10 / 4
`ENSMUSG00000029712`	ACTL6B	clan collapse	2	1	2 / 1
`ENSMUSG00000030016`	Znf638	clan collapse	2	1	4 / 0
`ENSMUSG00000055720`	Ubl7	clan collapse	2	1	6 / 0
`ENSMUSG00000037894`	H2AZ1	clan collapse	2	1	3 / 0
`ENSMUSG00000039382`	Wdr45	clan collapse	2	1	4 / 0
`ENSMUSG00000026825`	Dnm1	clan collapse	2	1	5 / 1
`ENSMUSG00000027998`	Plrg1	clan collapse	2	1	9 / 0
`ENSMUSG00000031505`	Naxd	clan collapse	2	1	3 / 0
`ENSMUSG00000005374`	Tbl2	clan collapse	2	1	5 / 0
`ENSMUSG00000042104`	UGGT2	clan collapse	2	1	2 / 0
`ENSMUSG00000020794`	UBE2G1	clan collapse	2	1	2 / 0
`ENSMUSG00000027679`	Dnajc19	clan collapse	2	1	2 / 0
`ENSMUSG00000017418`	ARL5B	clan collapse	2	1	13 / 0
`ENSMUSG00000042831`	Alkbh6	clan collapse	2	1	1 / 1
`ENSMUSG00000024862`	KLC2	clan collapse	2	1	38 / 0
`ENSMUSG00000059070`	Rpl18	clan collapse	2	1	2 / 0
`ENSMUSG00000021134`	Srsf5	clan collapse	2	1	6 / 0
`ENSMUSG00000033429`	Mcee	clan collapse	2	1	5 / 0
`ENSMUSG00000026201`	Stk16	clan collapse	2	1	7 / 1
`ENSMUSG00000058291`	Zfp39	clan collapse	2	1	9 / 1
`ENSMUSG00000011658`	Fuz	clan collapse	2	1	3 / 0
`ENSMUSG00000032786`	Alas1	clan collapse	2	1	5 / 0
`ENSMUSG00000053483`	Usp21	clan collapse	2	1	3 / 0
`ENSMUSG00000093445`	Lrch4	clan collapse	2	1	7 / 0
`ENSMUSG00000030272`	Camk1	clan collapse	2	1	9 / 0
`ENSMUSG00000022793`	B4galt4	clan collapse	2	1	3 / 0
`ENSMUSG00000019054`	Fis1	clan collapse	2	1	8 / 0
`ENSMUSG00000028954`	Nub1	clan collapse	2	1	11 / 0
`ENSMUSG00000006728`	Cdk4	clan collapse	2	1	8 / 0
`ENSMUSG00000031171`	Ftsj1	clan collapse	2	1	4 / 0
`ENSMUSG00000025499`	H-RAS	clan collapse	2	1	13 / 0
`ENSMUSG00000042540`	Acot5	clan collapse	2	1	5 / 0
`ENSMUSG00000006782`	Cnp	clan collapse	2	1	23 / 0

Domain Variants by Evidence Tier

Variable Domain Landscape

Total Variable Domains

360

Domain Loss Events

341

Domain Gain Events

Loss : Gain Ratio

9.5:1

Domain loss dominates gain ~9:1, consistent with alternative splicing predominantly removing exons encoding specific domains rather than inserting novel domain-encoding exons.

All Variable Domains (360)

Domain	DV Genes	Gain	Loss	Genes
`UPF0242`	3	0	3	Azi2, Fgfr1op2, Gabbr1
`zf-RING_4`	2	0	2	Rnf181, Zfand3
`FapA`	2	0	2	Azi2, Cibar1
`FAM184`	2	1	1	Tmem191, CLTA
`Uso1_p115_C`	2	0	2	Bloc1s2, Tpd52l1
`YabA`	2	0	2	Ccdc136, Wdr37
`RR_TM4-6`	2	0	2	Ing1, Zcchc17
`Presenilin`	2	1	1	Cd47, RNPS1
`TMF_TATA_bd`	2	0	2	Azi2, Klc1
`Ge1_WD40`	2	0	2	Fbxw2, Poc1a
`Jnk-SapK_ap_N`	2	0	2	Bin1, Stx5
`Ribosomal_60s`	2	0	2	Bcl11a, Phf23
`PPP4R2`	2	0	2	Apbb1, Bcl11a
`DNA_pol_phi`	2	0	2	Apbb1, Bcl11a
`ANF_receptor`	2	0	2	Gabbr1, Htatip2
`DUF4407`	2	1	1	Ing4, Hnrnpc
`SR1P`	1	0	1	Stx18
`Glyco_hydro_2`	1	0	1	Gusb
`Glyco_hydro_2_C`	1	0	1	Gusb
`Siva`	1	0	1	LMO3
`DUF6447`	1	0	1	Cibar1
`H-kinase_dim`	1	0	1	Tmem191
`Peptidase_M35`	1	0	1	Tmem191
`pRN1_helical`	1	0	1	Tmem191
`ATG14`	1	0	1	Tmem191
`NPV_P10`	1	0	1	Tmem191
`APG6_N`	1	0	1	Tmem191
`ArsA_ATPase`	1	0	1	Tmem191
`IQ`	1	0	1	Rasgrf1
`AAA_11`	1	0	1	Rasgrf1
`PH_17`	1	0	1	Rasgrf1
`PH_13`	1	0	1	Rasgrf1
`RasGEF_N`	1	0	1	Rasgrf1
`RhoGEF`	1	0	1	Rasgrf1
`DUF3877`	1	0	1	Rasgrf1
`RasGEF`	1	0	1	Rasgrf1
`PolC_DP2`	1	0	1	ENSMUSG00000063236
`DUF3584`	1	0	1	ENSMUSG00000063236
`PGC7_Stella`	1	0	1	ENSMUSG00000063236
`TMEM18`	1	0	1	Zdhhc4
`DUF417`	1	0	1	Zdhhc4
`DZR_2`	1	0	1	Zdhhc4
`TPR_17`	1	0	1	Anapc5
`FXR_C3`	1	0	1	FXR1
`PDZ`	1	0	1	Trappc4
`HHH_5`	1	0	1	Polb
`DUF3701`	1	0	1	Polb
`DNA_pol_lambd_f`	1	0	1	Polb
`HHH`	1	0	1	Polb
`HHH_8`	1	0	1	Polb
`HHH_2`	1	0	1	Polb
`WSN`	1	0	1	Polb
`Cdd1`	1	0	1	Polb
`HHH_3`	1	0	1	Polb
`IMS_HHH`	1	0	1	Polb
`Nitrate_red_gam`	1	0	1	Rce1
`PRY`	1	0	1	Trim9
`SPRY`	1	0	1	Trim9
`Tfb5`	1	0	1	Ndufab1
`TT_ORF2a`	1	0	1	Rab36
`Ank`	1	0	1	Acbd6
`Ank_2`	1	0	1	Acbd6
`Ank_5`	1	0	1	Acbd6
`Ank_4`	1	0	1	Acbd6
`Ank_3`	1	0	1	Acbd6
`ZapA`	1	0	1	Bloc1s2
`Ima1_N`	1	0	1	Bloc1s2
`UPF0449`	1	0	1	Bloc1s2
`Sec1`	1	0	1	Bloc1s2
`IZUMO`	1	0	1	Wdr37
`HALZ`	1	0	1	Wdr37
`DivIVA`	1	0	1	Wdr37
`SUZ`	1	1	0	Arpp21
`R3H`	1	1	0	Arpp21
`CdhD`	1	0	1	Memo1
`GST_C`	1	0	1	Eef1e1
`GST_C_6`	1	0	1	Eef1e1
`GST_C_2`	1	0	1	Eef1e1
`GST_C_3`	1	0	1	Eef1e1
`NYD-SP12_N`	1	0	1	Stub1
`Pkinase_fungal`	1	1	0	Araf
`Kinase-like`	1	1	0	Araf
`Pkinase`	1	1	0	Araf
`APH`	1	1	0	Araf
`Kdo`	1	1	0	Araf
`Rubredoxin_2`	1	0	1	Araf
`PK_Tyr_Ser-Thr`	1	1	0	Araf
`ABC1`	1	1	0	Araf
`DUF2457`	1	1	0	RNPS1
`CagA`	1	1	0	RNPS1
`PAP1`	1	1	0	RNPS1
`MIT`	1	0	1	Klc1
`DUF349`	1	0	1	Hmox2
`YrbL-PhoP_reg`	1	0	1	RPS24
`HnRNPA1`	1	0	1	HNRNPA2B1
`Nup35_RRM_2`	1	0	1	HNRNPA2B1
`Herpes_LMP1`	1	0	1	Sirt5
`Trp_halogenase`	1	0	1	Smox
`MLTD_N`	1	0	1	Smox
`Glu_dehyd_C`	1	0	1	Smox
`Fib_alpha`	1	0	1	Tpd52l1
`CtnDOT_TraJ`	1	0	1	Tpd52l1
`Binary_toxB_2`	1	0	1	Tpd52l1
`CCDC23`	1	1	0	Josd2
`MLD`	1	0	1	Iqcb1
`SelR`	1	0	1	Slirp
`PRR20`	1	0	1	Fam241b
`SPOB_ab`	1	0	1	Atp6v1h
`YlbD_coat`	1	0	1	Atp6v1h
`Shadoo`	1	0	1	Esd
`Ureide_permease`	1	0	1	Sirpa
`DUF5326`	1	0	1	Scn1b
`DUF6264`	1	0	1	Scn1b
`DUF4726`	1	0	1	Hspbp1
`Glucosaminidase`	1	0	1	Tardbp
`FSA_C`	1	0	1	Khdrbs3
`bZIP_Maf`	1	0	1	Sh3glb2
`DUF819`	1	0	1	Lamp5
`Renin_r`	1	0	1	Lamp5
`Asp4`	1	0	1	Lamp5
`Cons_hypoth698`	1	0	1	Lamp5
`PRKG1_interact`	1	0	1	Azi2
`FlaC_arch`	1	0	1	Azi2
`DUF1967`	1	0	1	Azi2
`Herpes_BLRF2`	1	0	1	Azi2
`Cep57_MT_bd`	1	0	1	Azi2
`DUF1319`	1	0	1	Azi2
`DivIC`	1	0	1	Azi2
`DUF4672`	1	0	1	Fam32a
`DUF2057`	1	0	1	Lin7b
`RecC_C`	1	0	1	Lin7b
`VP1_VP3`	1	0	1	Serbp1
`DLIC`	1	0	1	Macroh2a1
`Nse4-Nse3_bdg`	1	0	1	Skic8
`T2SSM`	1	0	1	UBE2I
`Proteasome_A_N`	1	0	1	Poc1a
`Nup160`	1	0	1	Poc1a
`WD40_like`	1	0	1	Poc1a
`Cytochrom_D1`	1	0	1	Poc1a
`eIF2A`	1	0	1	Poc1a
`Gly_acyl_tr_C`	1	0	1	Nat9
`ZapD`	1	0	1	Snf8
`Romo1`	1	0	1	Mpv17
`C2-set`	1	0	1	CD33
`DUF6350`	1	0	1	Tusc3
`YhhN`	1	0	1	Tusc3
`Bax1-I`	1	0	1	Tusc3
`Yip1`	1	0	1	Tusc3
`Raf1_HTH`	1	1	0	Ubc
`DUF969`	1	1	0	Ubc
`DMA`	1	1	0	Ubc
`PI3K_p85B`	1	1	0	Ubc
`GDYXXLXY`	1	1	0	Ubc
`UN_NPL4`	1	1	0	Ubc
`Sde2_N_Ubi`	1	1	0	Ubc
`2_5_RNA_ligase2`	1	1	0	Ubc
`TBD`	1	0	1	Bin1
`BAR_3`	1	0	1	Bin1
`V-SNARE`	1	0	1	Bin1
`DUF1664`	1	0	1	Bin1
`OmpH`	1	0	1	Bin1
`Arfaptin`	1	0	1	Bin1
`CK2S`	1	0	1	Bin1
`FAP206`	1	0	1	Ccdc136
`Lectin_N`	1	0	1	Ccdc136
`ERM_helical`	1	0	1	Ccdc136
`Phlebovirus_NSM`	1	0	1	Ccdc136
`Mo25`	1	0	1	Chmp2a
`XRN1_DBM`	1	0	1	Tmub2
`DUF3268`	1	0	1	Bcl11a
`DUF2256`	1	0	1	Bcl11a
`zf-H2C2_2`	1	0	1	Bcl11a
`zf-C2H2_2`	1	0	1	Bcl11a
`DUF4820`	1	0	1	Bcl11a
`Importin_rep_6`	1	0	1	Bcl11a
`Nop14`	1	0	1	Bcl11a
`TUTase`	1	0	1	Bcl11a
`Astro_capsid_p`	1	0	1	Bcl11a
`BSP_II`	1	0	1	Bcl11a
`NOA36`	1	0	1	Bcl11a
`RNA_pol_3_Rpc31`	1	0	1	Bcl11a
`zf-H2C2_5`	1	0	1	Bcl11a
`FAM32A`	1	0	1	Bcl11a
`DDHD`	1	0	1	Bcl11a
`BBP1_C`	1	0	1	Uchl5
`S-methyl_trans`	1	0	1	Uchl5
`Rep_fac_C`	1	0	1	Uchl5
`Glyco_hydro_36`	1	1	0	Tpd52l2
`AAA_13`	1	0	1	Tpd52l2
`HIP1_clath_bdg`	1	0	1	Tpd52l2
`DUF4164`	1	1	0	Tpd52l2
`ubiquitin`	1	0	1	Tecr
`RAP`	1	0	1	Abhd12
`DUF900`	1	0	1	Abhd12
`TRP_2`	1	0	1	Abhd12
`SMN`	1	0	1	KCTD17
`Peptidase_M90`	1	0	1	KCTD17
`COX14`	1	0	1	SMIM29
`PaREP1`	1	0	1	SMIM29
`CcmH`	1	0	1	SMIM29
`BCCT`	1	0	1	SMIM29
`ABC2_membrane_3`	1	0	1	SMIM29
`NUC173`	1	0	1	Aopep
`LEDGF`	1	0	1	Psip1
`Rv0078B`	1	0	1	PDLIM7
`DUF4749`	1	0	1	PDLIM7
`DASH_Dad2`	1	0	1	Ing4
`DUF1376`	1	0	1	Ing4
`HCMV_UL139`	1	0	1	Ing4
`IFP_35_N`	1	0	1	Ing4
`AP3D1`	1	0	1	Ing4
`DASH_Spc19`	1	0	1	Ing4
`DUF1192`	1	0	1	Ing4
`ABC_tran_CTD`	1	0	1	Ing4
`DUF4200`	1	0	1	Ing4
`PHD_2`	1	0	1	Ing4
`HSP70`	1	0	1	Kars1
`DUF3489`	1	0	1	Rpl13a
`IBR`	1	0	1	Zfand3
`DAG_kinase_N`	1	0	1	Zfand3
`FYVE`	1	0	1	Zfand3
`Hamartin`	1	0	1	Zfand3
`Baculo_F`	1	0	1	Stx5
`Prominin`	1	0	1	Stx5
`Syntaxin_2`	1	0	1	Stx5
`DUF4795`	1	0	1	Stx5
`QWRF`	1	0	1	Stx5
`Nuf2_DHR10-like`	1	0	1	Stx5
`WASH_WAHD`	1	0	1	Stx5
`Hc1`	1	0	1	Diablo
`Nha1_C`	1	0	1	Phf23
`PHD_4`	1	0	1	Phf23
`EBV-NA3`	1	0	1	Phf23
`DUF2813`	1	0	1	Pak1
`PA26`	1	1	0	Hnrnpc
`TMPIT`	1	0	1	Hnrnpc
`Cytadhesin_P30`	1	0	1	Hnrnpc
`Nup88`	1	0	1	Hnrnpc
`AAA_23`	1	0	1	Stmn4
`CCDC84`	1	0	1	Stmn4
`GBP_C`	1	0	1	Stmn4
`Lycopene_cyc`	1	0	1	Gpr137b
`UPF0181`	1	0	1	Sf1
`YbgT_YccB`	1	0	1	Atp6v0b
`DUF3742`	1	0	1	Atp6v0b
`DNA_primase_lrg`	1	0	1	Rpl18a
`SCNM1_acidic`	1	0	1	Scnm1
`Tricorn_PDZ`	1	0	1	Htra2
`MASE3`	1	0	1	Hm13
`CHAP`	1	0	1	Fbxw2
`HTH_20`	1	1	0	Myl4
`MmgE_PrpD`	1	0	1	Gfra4
`tRNA_anti-like`	1	0	1	Nars1
`tRNA_anti_2`	1	0	1	Nars1
`LMBR1`	1	0	1	Psma3
`NAD_binding_7`	1	0	1	Txnrd2
`Lycopene_cycl`	1	0	1	Txnrd2
`FXMRP1_C_core`	1	0	1	Drap1
`CBF`	1	1	0	Nap1l1
`NPL`	1	1	0	Nap1l1
`GEN1_C`	1	1	0	Nap1l1
`Peripla_BP_6`	1	0	1	Gabbr1
`DUF6377`	1	0	1	Gabbr1
`NEMP`	1	0	1	Gabbr1
`CCDC-167`	1	0	1	Gabbr1
`COX1`	1	0	1	Gabbr1
`Kei1`	1	0	1	Gabbr1
`7tm_3`	1	0	1	Gabbr1
`PKcGMP_CC`	1	0	1	Gabbr1
`DUF3995`	1	0	1	Gabbr1
`Lipoprotein_21`	1	0	1	Ube2v1
`Tir_receptor_C`	1	0	1	CADM1
`MGC-24`	1	0	1	CADM1
`DUF4446`	1	0	1	Fgfr1op2
`Sec20`	1	0	1	Fgfr1op2
`Prefoldin_2`	1	0	1	Fgfr1op2
`WXG100`	1	0	1	Fgfr1op2
`DUF2570`	1	0	1	Fgfr1op2
`Cauli_AT`	1	0	1	Fgfr1op2
`Phage_GP20`	1	0	1	Fgfr1op2
`LUC7`	1	0	1	Fgfr1op2
`TolA_bind_tri`	1	0	1	Fgfr1op2
`MAT1`	1	0	1	Fgfr1op2
`TPR_MLP1_2`	1	0	1	Fgfr1op2
`betaPIX_CC`	1	0	1	Fgfr1op2
`CHD5`	1	0	1	Fgfr1op2
`Snapin_Pallidin`	1	0	1	Fgfr1op2
`bZIP_1`	1	0	1	Fgfr1op2
`Occludin_ELL`	1	0	1	Fgfr1op2
`FIN1`	1	0	1	Fgfr1op2
`ZapB`	1	0	1	Fgfr1op2
`zf-RING_10`	1	0	1	Mkrn1
`Cytochrom_C_2`	1	0	1	Eef1d
`Herpes_DNAp_acc`	1	0	1	Eef1d
`MARVEL`	1	0	1	Gnas
`Peptidase_S49_N`	1	0	1	Gnas
`NESP55`	1	0	1	Gnas
`Lgl_C`	1	0	1	Dda1
`DUF3138`	1	0	1	Dda1
`DUF4748`	1	0	1	Pnkd
`DUF6161`	1	1	0	CLTA
`GPS2_interact`	1	0	1	Mrps15
`AAA_lid_2`	1	0	1	Mrps15
`Ribosomal_S6`	1	1	0	Ppil2
`YopD`	1	1	0	Fam107a
`DEAD_assoc`	1	0	1	Pstk
`AAA_16`	1	0	1	Pstk
`AAA_22`	1	0	1	Pstk
`DO-GTPase1`	1	0	1	Pstk
`ParA`	1	0	1	Pstk
`APS_kinase`	1	0	1	Pstk
`MMR_HSR1`	1	0	1	Pstk
`AAA_33`	1	0	1	Pstk
`AAA_25`	1	0	1	Pstk
`MeaB`	1	0	1	Pstk
`AAA_18`	1	0	1	Pstk
`Zeta_toxin`	1	0	1	Pstk
`Thump_like`	1	0	1	Naa10
`DUF4632`	1	0	1	Ddx39a
`DUF6777`	1	0	1	Nherf2
`ROK`	1	0	1	Nagk
`ExbD`	1	0	1	Ramp2
`YqzH`	1	0	1	Clu
`Myosin_tail_1`	1	0	1	Clu
`FAM192A_Fyv6_N`	1	0	1	Clu
`CIS_TMP`	1	0	1	Ing1
`SRP-alpha_N`	1	0	1	Ing1
`ZYG-11_interact`	1	0	1	Ing1
`KH_5`	1	0	1	Ing1
`DUF913`	1	0	1	Ing1
`DUF4551`	1	0	1	Ing1
`SAPS`	1	0	1	Ing1
`PhageMetallopep`	1	1	0	Mindy3
`DUF5973`	1	0	1	Ckmt1
`CDP-OH_P_tran_2`	1	0	1	Mtch2
`LCD1`	1	1	0	Thyn1
`Ribophorin_I`	1	0	1	Rpusd1
`PQQ_3`	1	0	1	FBXW9
`WD40_2`	1	0	1	FBXW9
`GlcNAc-1_reg`	1	0	1	Tcp1
`Neurensin`	1	0	1	Tmem134
`DPM3`	1	0	1	Tmem134
`TMEM171`	1	0	1	Tmem134
`DUF6232`	1	0	1	Tmem134
`ThrE_2`	1	0	1	Tmem134
`DUF2207`	1	0	1	Tmem134
`DUF308`	1	0	1	Tmem134
`SdpI`	1	0	1	Tmem134
`Virul_fac_BrkB`	1	0	1	Tmem134
`DUF3040`	1	0	1	Tmem134
`Redoxin`	1	0	1	Rpl34
`HeH`	1	0	1	Glrx3
`ZinT`	1	0	1	Glrx3
`DUF953`	1	0	1	Glrx3
`Thioredoxin_8`	1	0	1	Glrx3
`Thioredoxin_9`	1	0	1	Glrx3
`Phosducin`	1	0	1	Glrx3
`RdRP`	1	0	1	Glrx3
`DIM1`	1	0	1	Glrx3
`Arf`	1	0	1	Glrx3

Domain Variant Genes (592 genes, multiple architectures after QC)

All domain variant genes retaining multiple domain architectures after clan collapse and density artifact removal. Use the search box to filter by gene ID, name, function, or domain.

Showing 592 of 592 genes

Gene	Name	Function	Isoforms	Arch	Tier	CPM	Source	Core Domains
`ENSMUSG00000055692`	Tmem191	Transmembrane protein 191	4	4	1	32.1	Mixed	CheZ, DUF1664, GAS, KASH_CCD, TMEM191C
`ENSMUSG00000057506`	Bloc1s2	Biogenesis of lysosome-related organelles complex 1 subunit 2	4	4	1	230.0	Mixed	BLOC1_2, CENP-Q, DUF948, DivIC, Fib_alpha, HEF_HK, NPV_P10, ParB, XhlA
`ENSMUSG00000021288`	Klc1	Kinesin light chain 1	4	4	1	393.1	Mixed	ANAPC3, COG2, DUF4919, DUF627, GHL5, GlfT2_domain3, JIP_LZII, PPR, PPR_2, RNPP_C, RPN7, SHNi-TPR, SOGA, TPR_1, TPR_10, TPR_12, TPR_14, TPR_16, TPR_17, TPR_19, TPR_2, TPR_4, TPR_7, TPR_8, TPR_MalT, YabA
`ENSMUSG00000022332`	Khdrbs3	KH domain-containing, RNA-binding, signal transduction-associated protein 3	4	4	1	69.5	Mixed	KH_1, Qua1, STAR_dimer, Sam68-YY
`ENSMUSG00000008348`	Ubc	Polyubiquitin-C	6	4	1	163.1	Novel	Big_7, CFAP298, CorA, Crinkler, DUF1942, DUF2604, DUF3861, DUF5450, DUF6393, Dsc3_N, FlgD_ig, HemeBinding_Shp, LBP_C, ORF11CD3, Phage_sheath_1N, Plexin_RBD, ProRS-C_2, Pullulanase_N2, Rad60-SLD, Rad60-SLD_2, Staphylokinase, TBK1_ULD, TmoB, UDP-g_GGTase, Ubiquitin_2, Ubiquitin_4, Ubiquitin_5, ubiquitin
`ENSMUSG00000000827`	Tpd52l2	Tumor protein D54	7	4	1	26.7	Mixed	TPD52, VASP_tetra
`ENSMUSG00000062753`	SMIM29	Small integral membrane protein 29	4	4	1	69.5	Ref	DUF2371, DUF3267, DUF3619, DUF4245, Hol_Tox
`ENSMUSG00000000296`	Tpd52l1	Tumor protein D53	4	4	4	24.1	Mixed	Cnn_1N, CorA, DUF1818, DUF3458_C, DUF745, NUDE_C, TMEM247, TPD52, Uds1, WEMBL
`ENSMUSG00000028218`	Cibar1	CBY1-interacting BAR domain-containing protein 1	3	3	1	125.7	Novel	FAM92, P4Ha_N, Syntaxin-6_N, Vps5
`ENSMUSG00000063236`	—	UPF0488 protein C8orf33 homolog	3	3	1	34.8	Ref	CtsR_C, DUF4615, PDE4_UCR
`ENSMUSG00000001844`	Zdhhc4	Palmitoyltransferase ZDHHC4	3	3	1	32.1	Mixed	DHHC
`ENSMUSG00000035642`	Aamdc	Mth938 domain-containing protein	4	3	1	112.3	Ref	DUF498, Indigoidine_A, UPF0180
`ENSMUSG00000028772`	Zcchc17	Zinc finger CCHC domain-containing protein 17	4	3	1	8.0	Novel	CDC45, Coilin_N, CpXC, DUF3827, DUF4604, Hid1, Menin, S1, SR-25, zf-CCHC
`ENSMUSG00000001127`	Araf	Serine/threonine-protein kinase A-Raf	6	3	1	248.7	Mixed	C1_1, RBD, TUG-UBL1, zf-RING-like, zf-RING_2
`ENSMUSG00000034681`	RNPS1	RNA-binding protein with serine-rich domain 1	5	3	1	77.6	Mixed	Macoilin, Nup35_RRM_2, PI3K_1B_p101, RRM_1, RRM_3, RRM_5, RRM_7, RRM_occluded
`ENSMUSG00000021040`	Slirp	SRA stem-loop-interacting RNA-binding protein, mitochondrial	3	3	1	21.4	Ref	Nup35_RRM, Nup35_RRM_2, PB1, RRM_1
`ENSMUSG00000019194`	Scn1b	Sodium channel regulatory subunit beta-1	4	3	1	222.0	Mixed	Ig_2, Ig_3, Protocadherin, V-set, ig
`ENSMUSG00000041459`	Tardbp	TAR DNA-binding protein 43	3	3	1	16.0	Ref	Nup35_RRM_2, RL, RRM_1, RRM_3, RRM_5, RRM_7, TDP43_N, Trypsin
`ENSMUSG00000027270`	Lamp5	Lysosome-associated membrane glycoprotein 5	3	3	1	521.5	Mixed	Chordopox_A13L, DUF4083, Lamp, VAS1_LD
`ENSMUSG00000039285`	Azi2	5-azacytidine-induced protein 2	3	3	1	16.0	Mixed	CENP-F_leu_zip, Cnn_1N, Csm1_N, DMPK_coil, DUF1090, DUF4407, HIP1_clath_bdg, Prefoldin_2, SurA_N, TBD, TPR_MLP1_2, YlqD, bZIP_2
`ENSMUSG00000003872`	Lin7b	Protein lin-7 homolog B	3	3	1	173.8	Novel	L27, PDZ, PDZ_2, PDZ_6, Peptidase_M50
`ENSMUSG00000006058`	Snf8	Vacuolar-sorting protein SNF8	3	3	1	165.8	Mixed	DUF4896, EAP30, EutK_C, Phage_Mu_Gam, Plasmid_RAQPRD, RPA_interact_C
`ENSMUSG00000118664`	Tusc3	Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit TUSC3	3	3	1	77.6	Mixed	DUF4131, Gram_pos_anchor, OST3_OST6, Thioredoxin
`ENSMUSG00000024381`	Bin1	Myc box-dependent-interacting protein 1	3	3	1	58.8	Mixed	BAR, BLOC1_2, Baculo_PEP_C, DUF5667, DUF948, Laminin_II, PTS_IIA, SH3_1, SH3_2, SH3_9, THP2, YtxH
`ENSMUSG00000029769`	Ccdc136	Coiled-coil domain-containing protein 136	3	3	1	93.6	Mixed	ATG16, Baculo_PEP_C, Baculo_p24, Crescentin, DASH_Dam1, DUF4407, DUF4763, DUF87, Fez1, Filament, GAS, Golgin_A5, MAD, PH_19, Tup_N
`ENSMUSG00000018189`	Uchl5	Ubiquitin carboxyl-terminal hydrolase isozyme L5	3	3	1	45.5	Novel	DUF2785, PNPase, Peptidase_C12, UCH_C
`ENSMUSG00000032046`	Abhd12	Lysophosphatidylserine lipase ABHD12	3	3	1	211.3	Mixed	Abhydrolase_1, Abhydrolase_11, Abhydrolase_2, Abhydrolase_3, Abhydrolase_6, BD-FAE, Hydrolase_4, LIP, Peptidase_S15, Peptidase_S9, Say1_Mug180, Thioesterase
`ENSMUSG00000033287`	KCTD17	BTB/POZ domain-containing protein KCTD17	3	3	1	61.5	Novel	BTB, BTB_2, Rrn6, SAM_LFY
`ENSMUSG00000030330`	Ing4	Inhibitor of growth protein 4	3	3	1	99.0	Ref	DUF6482, ING, LMBR1, PHD, SOGA, zf-HC5HC2H
`ENSMUSG00000074129`	Rpl13a	Large ribosomal subunit protein uL13	3	3	1	1,901.5	Ref	Ribosomal_L13, SLT_L
`ENSMUSG00000044477`	Zfand3	AN1-type zinc finger protein 3	3	3	1	18.7	Ref	Nucleo_P87, zf-A20, zf-AN1
`ENSMUSG00000010110`	Stx5	Syntaxin-5	4	3	1	24.1	Ref	Apolipoprotein, BLOC1_2, Cep3, DUF16, DUF1664, DUF5063, DUF5082, Fib_alpha, IZUMO, LPP, MCPsignal, NPV_P10, SKA1, SNARE, Spectrin, Syntaxin, Syntaxin-5_N, Troponin, Vac_Fusion
`ENSMUSG00000018572`	Phf23	PHD finger protein 23	3	3	1	8.0	Ref	C1_1, PHD, PHD_2, Pox_Ag35, RNA_pol_3_Rpc31, zf-HC5HC2H, zf-RING_9
`ENSMUSG00000060373`	Hnrnpc	Heterogeneous nuclear ribonucleoproteins C1/C2	6	3	1	99.0	Ref	FUT8_N_cat, RRM_1, SKA1, Saf4_Yju2, XhlA, YabA
`ENSMUSG00000022044`	Stmn4	Stathmin-4	4	3	1	585.7	Ref	ATG14, DHR-2_Lobe_C, EF-hand_14, Exonuc_VII_L, FUT8_N_cat, Pex19, Ribonuc_2-5A, Stathmin, UPF0242
`ENSMUSG00000033379`	Atp6v0b	V-type proton ATPase 21 kDa proteolipid subunit c''	3	3	1	1,390.7	Ref	ATP-synt_C, G0-G1_switch_2, PIRT
`ENSMUSG00000022884`	EIF4A2	Eukaryotic initiation factor 4A-II	4	3	1	904.0	Ref	AAA_19, AAA_22, AAA_30, CMS1, DEAD, Fanconi_A, Flavi_DEAD, Helicase_C, Helicase_RecD, ResIII, UvrD-helicase, tRNA-synt_1b
`ENSMUSG00000068329`	Htra2	Serine protease HTRA2, mitochondrial	3	3	1	24.1	Ref	GRASP55_65, PDZ, PDZ_2, PDZ_6, Peptidase_M50, Peptidase_S32, Peptidase_S46, Trypsin, Trypsin_2
`ENSMUSG00000031342`	Gpm6b	Neuronal membrane glycoprotein M6-b	4	3	1	32.1	Ref	DUF2755, DUF373, LapA_dom, Myelin_PLP, PspB
`ENSMUSG00000024914`	Drap1	Dr1-associated corepressor	3	3	1	331.6	Ref	CBFD_NFYB_HMF, Histone, PPP4R2, TAF4
`ENSMUSG00000058799`	Nap1l1	Nucleosome assembly protein 1-like 1	5	3	1	369.1	Novel	NAP
`ENSMUSG00000045251`	ZNF688	Zinc finger protein 688	4	3	1	13.4	Mixed	FYVE_2, KRAB, OrfB_Zn_ribbon, TFIIS_C, Vps36-NZF-N, Zn-ribbon_8, Zn_ribbon_SprT, Zn_ribbon_recom, zf-C2H2, zf-C2H2_11, zf-C2H2_4, zf-C2H2_6, zf-C2H2_jaz, zf-H2C2_2, zf-ISL3, zf-LYAR, zf-met, zf_UBZ, zinc_ribbon_9
`ENSMUSG00000032076`	CADM1	Cell adhesion molecule 1	3	3	1	8.0	Ref	Adeno_E3_CR1, Adhes-Ig_like, C1-set, C2-set, C2-set_2, DUF3439, I-set, Ig_2, Ig_3, Ig_4, Ig_C17orf99, Izumo-Ig, SSP160, Syndecan, V-set, ig
`ENSMUSG00000040242`	Fgfr1op2	FGFR1 oncogene partner 2 homolog	3	3	1	66.9	Ref	Anthrax_toxA, DASH_Dam1, DUF16, Exonuc_VII_L, FUSC, FapA, Glyoxalase_8, Mgr1, NYD-SP28_assoc, PCRF, SIKE, TSC22, Tho2
`ENSMUSG00000027523`	Gnas	Guanine nucleotide-binding protein G(s) subunit alpha isoforms short	4	3	1	625.8	Ref	AAA_24, AAA_29, Arf, G-alpha, GTP_EFTU, Gtr1_RagA, MMR_HSR1, Roc, TniB
`ENSMUSG00000028478`	CLTA	Clathrin light chain A	5	3	1	690.0	Ref	CENP-Q, Clathrin_lg_ch, ORC3_N
`ENSMUSG00000028861`	Mrps15	Small ribosomal subunit protein uS15m	3	3	1	112.3	Novel	DUF272, DUF4140, DUF724, MIX23, PIN_4, Ribosomal_S15
`ENSMUSG00000063179`	Pstk	L-seryl-tRNA(Sec) kinase	3	3	1	13.4	Novel	KTI12, LMBR1
`ENSMUSG00000002504`	Nherf2	Na(+)/H(+) exchange regulatory cofactor NHE-RF2	4	3	1	34.8	Ref	DUF1450, DUF5994, DUF6288, EBP50_C, GRASP55_65, PDZ, PDZ_2, PDZ_6, Peptidase_M50
`ENSMUSG00000045969`	Ing1	Inhibitor of growth protein 1	4	3	1	10.7	Ref	CCDC106, CDC45, DDHD, DUF4661, DUF6739, Dsh_C, Hid1, ING, MAS20, MCM_bind, NPR3, PHD, PHD_2, Presenilin, Snu56_snRNP, Zip, zf-C4pol, zf-HC5HC2H
`ENSMUSG00000000308`	Ckmt1	Creatine kinase U-type, mitochondrial	4	3	1	377.1	Novel	ATP-gua_Ptrans, ATP-gua_PtransN
`ENSMUSG00000008167`	FBXW9	F-box/WD repeat-containing protein 9	3	3	1	24.1	Ref	F-box, F-box-like, WD40, WD40_like
`ENSMUSG00000031068`	Glrx3	Glutaredoxin-3	3	3	1	24.1	Novel	CNOT1_HEAT_N, DUF4279, GREB1_C, GST_N_3, GerD, Glutaredoxin, HyaE, OST3_OST6, SH3BGR, TMF_TATA_bd, Thioredoxin, Thioredoxin_2, TrbC_Ftype
`ENSMUSG00000027489`	Necab3	N-terminal EF-hand calcium-binding protein 3	2	2	1	85.6	Novel	ABM, Cactin_mid, DnaI_N, EF-hand_1, EF-hand_5, EF-hand_6, EF-hand_7, EF-hand_8, Jnk-SapK_ap_N
`ENSMUSG00000025470`	Znf511	Zinc finger protein 511	2	2	1	40.1	Novel	Chlam_OMP, zf-C2H2, zf-C2H2_3rep, zf-C2H2_4, zf-C2H2_8, zf-C2H2_jaz, zf-H2C2_2
`ENSMUSG00000029125`	Stx18	Syntaxin-18	3	2	1	26.7	Ref	DUF6279, Phage_CP76, Syntaxin-18_N, TipAS
`ENSMUSG00000029048`	Rer1	Protein RER1	2	2	1	109.7	Ref	DUF2208, Rer1, SEP
`ENSMUSG00000034799`	Unc13a	Protein unc-13 homolog A	2	2	1	16.0	Ref	C1_1, C2, MUN
`ENSMUSG00000019738`	POLR2I	DNA-directed RNA polymerase II subunit RPB9	2	2	1	72.2	Ref	CpXC, DUF3716, DZR, Ogr_Delta, RNA_POL_M_15KD, TFIIS_C, TF_Zn_Ribbon, Zn-ribbon_8, Zn_Tnp_IS1595, Zn_Tnp_IS91, Zn_ribbon_recom
`ENSMUSG00000025534`	Gusb	Beta-glucuronidase	3	2	1	26.7	Ref	Glyco_hydro_2_N
`ENSMUSG00000055850`	Rnf181	E3 ubiquitin-protein ligase RNF181	3	2	1	219.3	Novel	BIR, FANCL_C, PHD, Prok-RING_1, Prok-RING_4, RINGv, Rad50_zn_hook, UBZ_FAAP20, zf-ANAPC11, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-C3HC4_4, zf-Nse, zf-P11, zf-RING_11, zf-RING_16, zf-RING_2, zf-RING_5, zf-RING_6, zf-RING_UBOX, zf-rbx1
`ENSMUSG00000030226`	LMO3	LIM domain only protein 3	3	2	1	42.8	Ref	LIM
`ENSMUSG00000041889`	Shisa4	Protein shisa-4	2	2	1	152.4	Novel	AbrB, DUF4193, Shisa, TadB_TadC_N
`ENSMUSG00000069520`	Tmem19	Transmembrane protein 19	2	2	1	10.7	Ref	DUF92, PRIMA1
`ENSMUSG00000058672`	TUBB2A	Tubulin beta-2A chain	2	2	1	2,024.6	Novel	Misat_Tub_SegII, Tubulin, Tubulin_2, Tubulin_3, Tubulin_C
`ENSMUSG00000020755`	Sap30bp	SAP30-binding protein	2	2	1	24.1	Novel	CCDC84, HCNGP
`ENSMUSG00000024026`	Glo1	Lactoylglutathione lyase	3	2	1	128.4	Ref	Glyoxalase, Glyoxalase_4, Glyoxalase_6, PIG-X
`ENSMUSG00000038244`	Mical2	[F-actin]-monooxygenase MICAL2	2	2	1	82.9	Ref	AlaDh_PNT_C, CAMSAP_CH, CH, DAO, FAD_binding_2, FAD_binding_3, FAD_oxidored, GIDA, HI0933_like, LIM, Lycopene_cycl, NAD_binding_7, NAD_binding_8, Pyr_redox, Pyr_redox_2, Pyr_redox_3, TNFR_c6, Thi4, zf-C3HC4_2, zf-RRN7
`ENSMUSG00000029780`	Nt5c3a	Cytosolic 5'-nucleotidase 3A	2	2	1	64.2	Ref	ACT_7, CIDE-N, DZR_2, HAD, Hydrolase, UMPH-1, zf-ANAPC11
`ENSMUSG00000032356`	Rasgrf1	Ras-specific guanine nucleotide-releasing factor 1	3	2	1	176.5	Ref	PH, PH_11, PH_20
`ENSMUSG00000056486`	Chn1	N-chimaerin	2	2	1	647.2	Novel	C1_1, FYVE_2, PHD, PHD_2, RhoGAP, zf-RING-like, zf-RING_9
`ENSMUSG00000024142`	Mlst8	Target of rapamycin complex subunit LST8	3	2	1	13.4	Ref	ANAPC4_WD40, BRICHOS, DUF3463, DUF5854, Ge1_WD40, Hira, NBCH_WD40, Nup160, WD40
`ENSMUSG00000057522`	SPOP	Speckle-type POZ protein	2	2	1	16.0	Ref	BACK, BTB, MATH, YhhN
`ENSMUSG00000020458`	Rtn4	Reticulon-4	2	2	1	462.7	Novel	DUF4736, DUF639, Phage_holin_3_6, Reticulon
`ENSMUSG00000031728`	Znf821	Zinc finger protein 821	2	2	1	8.0	Ref	CDC45, CPSF73-100_C, DUF5679, DUF5810, DUF6011, DZR, HMBD, Rad50_zn_hook, zf-C2H2, zf-C2H2_11, zf-C2H2_4, zf-C2H2_6, zf-C2H2_9, zf-C2H2_jaz, zf-Di19, zf-H2C2_2, zf-HYPF, zf-met
`ENSMUSG00000079557`	Marchf2	E3 ubiquitin-protein ligase MARCHF2	2	2	1	157.8	Ref	Baculo_IE-1, RINGv, Vpu, zf-C3HC4, zf-RING_2, zf-rbx1
`ENSMUSG00000075467`	Dnlz	DNL-type zinc finger protein	2	2	1	5.3	Ref	DUF6112, DUF6510, HypA, Zn-ribbon_8, Zn_ribbon_SprT, zf-C2H2, zf-CSL, zf-DNL
`ENSMUSG00000033720`	Sfxn5	Sideroflexin-5	2	2	1	40.1	Ref	DUF1980, SFXNs
`ENSMUSG00000035632`	Cnot3	CCR4-NOT transcription complex subunit 3	2	2	1	26.7	Ref	Cluap1, DUF2433, DUF4407, FlxA, Glyco_hydro_67C, NOT2_3_5, Not3, PilJ, Swi5
`ENSMUSG00000029472`	Anapc5	Anaphase-promoting complex subunit 5	3	2	1	42.8	Ref	ANAPC5, MapZ_EC1, TPR_1, TPR_10, TPR_12, TPR_14, TPR_19, TPR_2, TPR_4, TPR_7, VP4_haemagglut, YycI
`ENSMUSG00000094936`	Rbm4b	RNA-binding protein 4B	2	2	1	10.7	Ref	Calcipressin, CompInhib_SCIN, DbpA, Nup35_RRM_2, RNA_bind, RRM_1, RRM_5, RRM_7, RRM_occluded, RSD-2, zf-CCHC, zf-CCHC_2, zf-CCHC_3, zf-CCHC_5
`ENSMUSG00000068739`	Sars1	Serine--tRNA ligase, cytoplasmic	2	2	1	64.2	Ref	NOD, PG_binding_2, Seryl_tRNA_N, VOMI, tRNA-synt_2b
`ENSMUSG00000001663`	Gstt1	Glutathione S-transferase theta-1	3	2	1	40.1	Novel	GST_C, GST_C_2, GST_C_3, GST_N, GST_N_2, GST_N_3
`ENSMUSG00000032112`	Trappc4	Trafficking protein particle complex subunit 4	3	2	1	246.0	Ref	PDZ_6, Sedlin_N, Sybindin
`ENSMUSG00000039917`	Rhbdd2	Rhomboid domain-containing protein 2	2	2	1	5.3	Ref	DER1, DUF2070, Rhomboid
`ENSMUSG00000024018`	Ccdc167	Coiled-coil domain-containing protein 167	2	2	1	0.0	Ref	ACCA, CCDC-167, CENP-F_leu_zip, DUF4337, DUF6674, DivIC, EAD9, ERM_helical, Fez1, Spc24, TPR_MLP1_2, Tropomyosin_1
`ENSMUSG00000031536`	Polb	DNA polymerase beta	4	2	1	90.9	Novel	DNA_pol_B_palm, DNA_pol_B_thumb, NTP_transf_2
`ENSMUSG00000035278`	Plekhj1	Pleckstrin homology domain-containing family J member 1	2	2	1	131.0	Novel	PH, PH_13, PH_16, Pinin_SDK_N
`ENSMUSG00000056121`	Fez2	Fasciculation and elongation protein zeta-2	3	2	1	42.8	Ref	DUF5102, FEZ, FapA, Gluconate_2-dh3, MRP-L46, NPV_P10, V_ATPase_I
`ENSMUSG00000052337`	Immt	MICOS complex subunit Mic60	2	2	1	56.2	Ref	ARGLU, DUF1664, FAT, Mitofilin, Rx_N, SBP_bac_11
`ENSMUSG00000060743`	His3.3A	Histone H3.3A	2	2	1	157.8	Ref	CBFD_NFYB_HMF, CENP-S, CENP-T_C, GHL13, Histone, PAF
`ENSMUSG00000000355`	Mcts1	Malignant T-cell-amplified sequence 1	3	2	1	69.5	Novel	DUF1947, Methyltr_RsmF_N, PUA, Pre-PUA
`ENSMUSG00000028677`	Rnf220	E3 ubiquitin-protein ligase Rnf220	2	2	1	2.7	Novel	DZR, DZR_2, Endonuclease_7, Pox_A_type_inc, Prok-RING_4, RNF220, Rad50_zn_hook, zf-ANAPC11, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-C3HC4_4, zf-Nse, zf-RING_10, zf-RING_2, zf-RING_5, zf-RING_UBOX
`ENSMUSG00000024889`	Rce1	CAAX prenyl protease 2	3	2	1	66.9	Ref	Rce1-like
`ENSMUSG00000021071`	Trim9	E3 ubiquitin-protein ligase TRIM9	3	2	1	42.8	Ref	DUF2203, Prok-RING_4, Trm112p, fn3, zf-B_box, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-C3HC4_4, zf-RING_2, zf-RING_5, zf-RING_UBOX
`ENSMUSG00000027777`	Schip1	Schwannomin-interacting protein 1	2	2	1	521.5	Ref	DUF5102, DUF5798, EURL, FEZ, HNF-1_N, SCHIP-1
`ENSMUSG00000015094`	Npdc1	Neural proliferation differentiation and control protein 1	2	2	1	1,040.4	Ref	LapA_dom, NPDC1
`ENSMUSG00000009894`	Snap47	Synaptosomal-associated protein 47	3	2	1	938.7	Novel	DUF16, DUF5089, GRAM, Imm3
`ENSMUSG00000030869`	Ndufab1	Acyl carrier protein, mitochondrial	3	2	1	93.6	Mixed	PP-binding, PP-binding_2
`ENSMUSG00000024436`	Mrps18b	Small ribosomal subunit protein mS40	2	2	1	117.7	Ref	FAM165, HTH_21, Ribosomal_S18, zf-RING_10
`ENSMUSG00000044811`	Cd300c2	CMRF-35-like molecule 4	2	2	1	18.7	Ref	Apq12, Ig_3, V-set, ig
`ENSMUSG00000020175`	Rab36	Ras-related protein Rab-36	3	2	1	13.4	Ref	AAA_14, Arf, Gtr1_RagA, MMR_HSR1, PduV-EutP, Ras, Roc, RsgA_GTPase, SRPRB
`ENSMUSG00000033701`	Acbd6	Acyl-CoA-binding domain-containing protein 6	3	2	1	69.5	Ref	ACBP
`ENSMUSG00000027534`	Snx16	Sorting nexin-16	2	2	1	34.8	Ref	DUF641, HIP1_clath_bdg, LRRFIP, PV-1, PX
`ENSMUSG00000052369`	Tmem106c	Transmembrane protein 106C	4	2	1	80.2	Novel	Anti-TRAP, CfAFP, DUF1356, LEA_2, La_HTH_kDCL, Vac7
`ENSMUSG00000033595`	Lgi3	Leucine-rich repeat LGI family member 3	2	2	1	66.9	Ref	EPTP, LRRCT, LRR_1, LRR_4, LRR_5, LRR_8, LRR_9, RCDG1, stn_TNFRSF12A
`ENSMUSG00000022634`	Yaf2	YY1-associated factor 2	2	2	1	24.1	Ref	C1_2, Ephrin_rec_like, PROCN, RAP1, WTX, YAF2_RYBP, zf-RanBP
`ENSMUSG00000022892`	App	Amyloid-beta precursor protein	2	2	1	984.2	Ref	APP_Cu_bd, APP_E2, APP_N, APP_amyloid, Activator-TraM, Beta-APP, DUF5033, Dicty_REP, Exonuc_VII_L, Insulin_TMD, Kunitz_BPTI, PI3K_1B_p101, PilJ, SDA1, Spore_III_AB
`ENSMUSG00000024617`	Camk2a	Calcium/calmodulin-dependent protein kinase type II subunit alpha	2	2	1	176.5	Novel	APH, CaMKII_AD, DUF4440, DUF6590, FTA2, Kdo, PK_Tyr_Ser-Thr, Pkinase, Pkinase_fungal, SnoaL_2, SnoaL_3, SnoaL_4
`ENSMUSG00000021147`	Wdr37	WD repeat-containing protein 37	3	2	1	2.7	Ref	ANAPC4_WD40, CCDC90-like, FAM76, NBCH_WD40, Nup160, WD40
`ENSMUSG00000026575`	Nme7	Nucleoside diphosphate kinase homolog 7	2	2	1	18.7	Novel	Arg_repressor, DM10_dom, NDK
`ENSMUSG00000039533`	Mmd2	Monocyte to macrophage differentiation factor 2	2	2	1	10.7	Novel	Ceramidase, DUF2842, DUF4199, Ferlin_C, HlyIII
`ENSMUSG00000023572`	Ccndbp1	Cyclin-D1-binding protein 1	3	2	1	90.9	Ref	APG6_N, CheF-arch, GCIP
`ENSMUSG00000040097`	Flywch1	FLYWCH-type zinc finger-containing protein 1	2	2	1	144.4	Novel	CoV_nucleocap, DUF2845, FLYWCH, FLYWCH_N, FLYWCH_u, GspH, NADH_oxidored, ScfRs, YdfZ, Zn_ribbon_recom
`ENSMUSG00000060450`	Rnf14	E3 ubiquitin-protein ligase RNF14	2	2	1	99.0	Ref	IBR, RWD, TBPIP, zf-C3HC4, zf-RING_11, zf-RING_2, zf-RING_5
`ENSMUSG00000022159`	Rab2b	Ras-related protein Rab-2B	2	2	1	10.7	Ref	AAA_22, Arf, DAP3, GTP_EFTU, Gtr1_RagA, MMR_HSR1, Ras, Roc, RsgA_GTPase, TetR_C_16
`ENSMUSG00000008301`	Phax	Phosphorylated adapter RNA export protein	2	2	1	29.4	Ref	DUF4692, PHAX_RNA-bd
`ENSMUSG00000032359`	Ctsh	Pro-cathepsin H	2	2	1	48.1	Ref	Inhibitor_I29, Peptidase_C1, Peptidase_C1_2
`ENSMUSG00000030824`	Nucb1	Nucleobindin-1	2	2	1	26.7	Ref	EF-hand_1, EF-hand_5, EF-hand_6, EF-hand_7, RNase_Y_N
`ENSMUSG00000019467`	Arhgef25	Rho guanine nucleotide exchange factor 25	2	2	1	8.0	Novel	PH, PH_10, RhoGEF, SAP18
`ENSMUSG00000022721`	Trmt2a	tRNA (uracil-5-)-methyltransferase homolog A	3	2	1	13.4	Ref	AviRa, CMAS, Cons_hypoth95, MTS, MetW, Methyltransf_11, Methyltransf_12, Methyltransf_15, Methyltransf_23, Methyltransf_25, Methyltransf_31, Methyltransf_32, Methyltransf_4, N6_N4_Mtase, NodS, PCMT, PrmA, RRM_1, TPMT, Ubie_methyltran, tRNA_U5-meth_tr
`ENSMUSG00000032503`	Arpp21	cAMP-regulated phosphoprotein 21	6	2	1	85.6	Ref	Birna_VP5, DUF5845, PIRT
`ENSMUSG00000058704`	Memo1	Protein MEMO1	3	2	1	2.7	Mixed	Memo
`ENSMUSG00000031897`	Psmb10	Proteasome subunit beta type-10	3	2	1	200.6	Novel	NAD_Gly3P_dh_C, Pr_beta_C, Proteasome
`ENSMUSG00000026888`	Grb14	Growth factor receptor-bound protein 14	2	2	1	82.9	Novel	BPS, PH, PH_20, RA, SH2
`ENSMUSG00000005312`	Ubqln1	Ubiquilin-1	2	2	1	26.7	Ref	CUE, ComX, DnaG_DnaB_bind, Dsc3_N, HOIP-UBA, PDH_C, Rad60-SLD, Rad60-SLD_2, STI1, UBA, Ubiquitin_4, Ubiquitin_5, XPC-binding, YukD, ubiquitin
`ENSMUSG00000006392`	Med8	Mediator of RNA polymerase II transcription subunit 8	2	2	1	50.8	Ref	Baculo_PEP_C, CENP-Q, CSN4_RPN5_eIF3a, Med8, SlyX
`ENSMUSG00000027286`	Lrrc57	Leucine-rich repeat-containing protein 57	3	2	1	45.5	Ref	CSTF_C, LRR_1, LRR_4, LRR_6, LRR_8, LRR_9
`ENSMUSG00000030663`	Smap	Small acidic protein	2	2	1	342.3	Ref	BUD22, CDC45, NOA36, Nop14, RNA_polI_A34, SMAP
`ENSMUSG00000001707`	Eef1e1	Eukaryotic translation elongation factor 1 epsilon-1	3	2	1	18.7	Mixed	Tom37
`ENSMUSG00000025967`	Eef1b	Elongation factor 1-beta	2	2	1	112.3	Ref	EF-1_beta_acid, EF1_GNE, GST_C_3, GST_C_6
`ENSMUSG00000023973`	Cnpy3	Protein canopy homolog 3	2	2	1	99.0	Ref	DUF3456, SapB_1, TBK1_CCD1
`ENSMUSG00000031996`	Aplp2	Amyloid beta precursor like protein 2	2	2	1	262.1	Novel	APP_Cu_bd, APP_E2, APP_N, Activator-TraM, CDC24, CDC45, DabA, Kunitz_BPTI, VHL_C
`ENSMUSG00000041353`	FAM156A	Protein FAM156A/FAM156B	2	2	1	26.7	Ref	FAM104, PGC7_Stella
`ENSMUSG00000013495`	Tmem175	Endosomal/lysosomal proton channel TMEM175	2	2	1	10.7	Novel	DUF1129, TMEM175
`ENSMUSG00000021773`	Comtd1	Catechol O-methyltransferase domain-containing protein 1	2	2	1	21.4	Ref	DNA_binding_1, MTS, Methyltransf_18, Methyltransf_24, Methyltransf_25, Methyltransf_3, Methyltransf_31, PCMT
`ENSMUSG00000044442`	Hemk2	Methyltransferase HEMK2	2	2	1	16.0	Ref	DUF5429, DUF938, MTS, Methyltransf_11, Methyltransf_12, Methyltransf_16, Methyltransf_24, Methyltransf_25, Methyltransf_31, Methyltransf_33, PCMT, PrmA, UPF0020
`ENSMUSG00000032673`	Prorsd1	Prolyl-tRNA synthetase associated domain-containing protein 1	2	2	1	16.0	Ref	DpnI_C, PRORP, SinI, tRNA_edit
`ENSMUSG00000039615`	Stub1	E3 ubiquitin-protein ligase CHIP	3	2	1	53.5	Ref	ANAPC3, CHIP_TPR_N, SHNi-TPR, TPR_1, TPR_10, TPR_11, TPR_12, TPR_14, TPR_16, TPR_17, TPR_19, TPR_2, TPR_20, TPR_6, TPR_7, TPR_8, TPR_9, U-box, zf-NOSIP
`ENSMUSG00000029126`	Nsg1	Neuronal vesicle trafficking-associated protein 1	2	2	1	112.3	Novel	Calcyon, DUF1581, DUF2448, DUF535
`ENSMUSG00000055447`	Cd47	Leukocyte surface antigen CD47	4	2	1	85.6	Ref	CD47, Ig_3, Mpo1-like, TssN, V-set_CD47
`ENSMUSG00000002015`	Bcap31	B-cell receptor-associated protein 31	2	2	1	312.9	Novel	APG6_N, ATG14, Bap31, Bap31_Bap29_C, CENP-H, DUF3498, DUF4140, DUF4337, DUF4407, DUF724, DUF730, DUF948, ERM_C, GAS, KASH_CCD, LMBR1, LMF1, PIG-U, Rx_N, Sec34, TolA_bind_tri, YabA
`ENSMUSG00000019210`	Atp6v1e1	V-type proton ATPase subunit E 1	2	2	1	1,762.5	Novel	ATP-synt_B, DUF4288, NifW, O-antigen_lig, Par3_HAL_N_term, vATP-synt_E
`ENSMUSG00000032172`	OLFM2	Noelin-2	2	2	1	157.8	Ref	ABC_tran_CTD, CLZ, DUF1664, Ephrin, Helo_like_N, Matrilin_ccoil, Noelin-1, OLF, PepSY_2
`ENSMUSG00000018858`	Mrpl58	Large ribosomal subunit protein mL62	2	2	1	53.5	Ref	HLH, NOG1_N, RF-1, pEK499_p136
`ENSMUSG00000021087`	rtn1-a	Reticulon-1-A	3	2	1	1,767.8	Ref	DUF4736, Reticulon
`ENSMUSG00000004070`	Hmox2	Heme oxygenase 2	3	2	1	56.2	Mixed	CENP-H, Heme_oxygenase, SsgA
`ENSMUSG00000025290`	RPS24	Small ribosomal subunit protein eS24	3	2	1	1,313.2	Ref	Ribosomal_S24e
`ENSMUSG00000031865`	Dctn1	Dynactin subunit 1	2	2	1	66.9	Novel	ADIP, AIP3, ATG14, ATG17_like, ATG7_N, Baculo_PEP_C, CAP_GLY, DUF2443, DUF2935, DUF4172, Dynactin, Fez1, Filament, HMMR_N, HsbA, JIP_LZII, MCC-bdg_PDZ, NPV_P10, Pox_A_type_inc, Spike_torovirin, Ufd2P_core
`ENSMUSG00000004980`	HNRNPA2B1	Heterogeneous nuclear ribonucleoproteins A2/B1	3	2	1	21.4	Ref	OB_RNB, RRM_1, RRM_7
`ENSMUSG00000054021`	Sirt5	NAD-dependent protein deacylase sirtuin-5, mitochondrial	4	2	1	18.7	Mixed	GlgS, PNTB, RseA_N, SIR2
`ENSMUSG00000002949`	Timm44	Mitochondrial import inner membrane translocase subunit TIM44	2	2	1	50.8	Ref	AIM3, DUF3347, DUF4211, DUF948, FUT8_N_cat, Kinase-PolyVal, Prominin, RecG_N, Syntaxin, Syntaxin_2, TMPIT, Tim44
`ENSMUSG00000030613`	Ccdc90b	Coiled-coil domain-containing protein 90B, mitochondrial	2	2	1	56.2	Ref	Activator-TraM, CCDC90-like, DUF3509, Lipoprotein_7, MHC_I_2, PRKG1_interact, Vac_Fusion, YabA
`ENSMUSG00000035824`	Tk2	Thymidine kinase 2, mitochondrial	2	2	1	18.7	Ref	AAA_18, AAA_33, CoaE, RE_Bpu10I, Thymidylate_kin, dNK
`ENSMUSG00000039128`	Cdc123	Translation initiation factor eIF2 assembly protein	2	2	1	24.1	Novel	D123, Reg_prop
`ENSMUSG00000027333`	Smox	Spermine oxidase	3	2	1	26.7	Ref	3HCDH_N, AlaDh_PNT_C, Amino_oxidase, DAO, FAD_binding_2, FAD_binding_3, FAD_oxidored, FMO-like, GIDA, HI0933_like, Lycopene_cycl, MCRA, NAD_binding_8, NAD_binding_9, Pyr_redox, Pyr_redox_2, Pyr_redox_3, Shikimate_DH, Thi4
`ENSMUSG00000021532`	Fastkd3	FAST kinase domain-containing protein 3, mitochondrial	2	2	1	8.0	Novel	FAST_1, FAST_2, RAP
`ENSMUSG00000021696`	Elovl7	Very long chain fatty acid elongase 7	2	2	1	2.7	Ref	DUF1129, ELO, MerR, TRAP_alpha
`ENSMUSG00000038005`	Hpf1	Histone PARylation factor 1	5	2	1	147.1	Mixed	DUF2228, DUF6027
`ENSMUSG00000025825`	Iscu	Iron-sulfur cluster assembly enzyme ISCU	2	2	1	323.6	Ref	Jag_N, NifU_N
`ENSMUSG00000028063`	Lmna	Prelamin-A/C	2	2	1	69.5	Ref	ATG16, CENP-F_leu_zip, Cnn_1N, Crescentin, DUF4407, FIVAR, Fez1, Filament, GBR2_CC, LTD, TPR_MLP1_2, Tht1, TolA_bind_tri, YabA, zf-NADH-PPase
`ENSMUSG00000036503`	Rnf13	E3 ubiquitin-protein ligase RNF13	2	2	1	8.0	Ref	Baculo_11_kDa, CTU2, DNA_ligase_ZBD, FeoB_associated, HTH_63, LapA_dom, Neur_chan_memb, Ninjurin, PA, PHD, Prok-RING_4, RINGv, SID-1_RNA_chan, zf-ANAPC11, zf-C3H2C3, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-RING_11, zf-RING_16, zf-RING_2, zf-RING_4, zf-RING_5, zf-RING_UBOX, zf-rbx1
`ENSMUSG00000037089`	Slc35b2	Adenosine 3'-phospho 5'-phosphosulfate transporter 1	2	2	1	37.4	Ref	DUF2070, EamA, PI3K_rbd, TPT, UAA
`ENSMUSG00000056962`	Jmjd6	Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6	2	2	1	26.7	Novel	AF-4, CCDC106, Cupin_8, IMUP, JmjC, JmjC_2, SR-25
`ENSMUSG00000015714`	Cers2	Ceramide synthase 2	3	2	1	26.7	Novel	Homeodomain, Homez, TRAM1, TRAM_LAG1_CLN8, UPF0767
`ENSMUSG00000054934`	Kcnmb4	Calcium-activated potassium channel subunit beta-4	2	2	1	74.9	Novel	CaKB, LapA_dom
`ENSMUSG00000064264`	Znf428	Zinc finger protein 428	2	2	1	96.3	Ref	PIEZO, zf-C2H2_4
`ENSMUSG00000047248`	C2cd3	C2 domain-containing protein 3	2	2	1	18.7	Ref	C2, NT-C2, UAE_UbL
`ENSMUSG00000042271`	Nxt2	NTF2-related export protein 2	2	2	1	21.4	Ref	NTF2, QRPTase_N
`ENSMUSG00000038695`	Josd2	Josephin-2	6	2	1	141.7	Mixed	Josephin
`ENSMUSG00000057531`	Dtnbp1	Dysbindin	2	2	1	64.2	Ref	DUF2730, Dysbindin, FUSC, FapA, Muted, NPV_P10, Peptidase_S46, Sec34, TRPM_tetra, Uso1_p115_C
`ENSMUSG00000022837`	Iqcb1	IQ calmodulin-binding motif-containing protein 1	3	2	1	5.3	Novel	Bac_export_1, Condensin2nSMC, DUF1765, IQ
`ENSMUSG00000029610`	Aimp2	Aminoacyl tRNA synthase complex-interacting multifunctional protein 2	2	2	1	136.4	Ref	AIMP2_LysRS_bd, GST_C, GST_C_2, GST_C_3, GST_C_6, GTP-bdg_M, Thioredoxin_16
`ENSMUSG00000002625`	Akap8l	A-kinase anchor protein 8-like	2	2	1	61.5	Ref	AKAP95, CDC45, SURF2, zf-C2H2_2
`ENSMUSG00000026857`	Ntmt1	N-terminal Xaa-Pro-Lys N-methyltransferase 1	2	2	1	88.3	Ref	Bin3, CTD4, Methyltransf_11, Methyltransf_12, Methyltransf_2, Methyltransf_23, Methyltransf_25, Methyltransf_29, Methyltransf_31, Methyltransf_PK, Ubie_methyltran
`ENSMUSG00000049721`	Gal3st1	Galactosylceramide sulfotransferase	2	2	1	13.4	Ref	Gal-3-0_sulfotr, Sulfotransfer_3, TCL1_MTCP1
`ENSMUSG00000029060`	Mib2	E3 ubiquitin-protein ligase MIB2	2	2	1	8.0	Ref	Ank, Ank_2, Ank_3, Ank_4, Ank_5, DMRT-like, MIB_HERC2, SH3_15, ZZ, zf-C3HC4_2, zf-C3HC4_3
`ENSMUSG00000001018`	Snapin	SNARE-associated protein Snapin	2	2	1	64.2	Ref	CATRA-C, COG2, CorA, DUF1664, DUF5798, E2F_TDP, NPV_P10, Snapin_Pallidin
`ENSMUSG00000027642`	Rpn2	Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2	2	2	1	34.8	Novel	DUF5859, HSM3_N, Mg_trans_NIPA, PI3K_rbd, Ribophorin_II
`ENSMUSG00000029131`	Dnajb6	DnaJ homolog subfamily B member 6	2	2	1	478.7	Ref	DnaJ, eIF3_subunit
`ENSMUSG00000048967`	Yjefn3	YjeF N-terminal domain-containing protein 3	2	2	1	10.7	Novel	DUF4381, GRIM-19, Planc_extracel, YjeF_N
`ENSMUSG00000020993`	Trappc6b	Trafficking protein particle complex subunit 6B	2	2	1	160.5	Novel	GCSF, TRAPP
`ENSMUSG00000020083`	Fam241b	Protein FAM241B	3	2	1	64.2	Ref	DUF4605
`ENSMUSG00000021759`	Plpp1	Phospholipid phosphatase 1	2	2	1	24.1	Novel	DUF418, DUF6541, PAP2, PAP2_C
`ENSMUSG00000001999`	Blvra	Biliverdin reductase A	2	2	1	104.3	Novel	Biliv-reduc_cat, GFO_IDH_MocA, HYPK_UBA, NAD_binding_3, SAM_KSR1
`ENSMUSG00000033793`	Atp6v1h	V-type proton ATPase subunit H	3	2	1	406.5	Novel	Arm, Arm_2, DUF2326, HEAT, Mlp, UCH, V-ATPase_H_C, V-ATPase_H_N
`ENSMUSG00000028411`	Aptx	Aprataxin	3	2	1	34.8	Ref	CBP_BcsO, DcpS_C, FHA, FHA_2, Glycoamylase, HIT, TAF8_C, zf-AN1, zf-C2H2_4, zf-C2H2_6, zf-C2HE
`ENSMUSG00000034789`	Rab24	Ras-related protein Rab-24	2	2	1	64.2	Novel	Arf, FeoB_N, Gtr1_RagA, MMR_HSR1, Ras, Roc, RsgA_GTPase, tRNA_anti-codon
`ENSMUSG00000024127`	Prepl	Prolyl endopeptidase-like	2	2	1	18.7	Novel	Peptidase_S9, Peptidase_S9_N
`ENSMUSG00000021996`	Esd	S-formylglutathione hydrolase	3	2	1	69.5	Mixed	AXE1, Abhydrolase_2, Abhydrolase_3, BD-FAE, Chlorophyllase, Chlorophyllase2, Esterase, Esterase_PHB, Hydrolase_4, Lipase_3, Peptidase_S9
`ENSMUSG00000037902`	Sirpa	Tyrosine-protein phosphatase non-receptor type substrate 1	3	2	1	24.1	Ref	C1-set, C2-set_2, DUF6479, I-set, Ig_2, Ig_3, MAT1-1-2, SIT, V-set, ig
`ENSMUSG00000057897`	Camk2b	Calcium/calmodulin-dependent protein kinase type II subunit beta	2	2	1	211.3	Ref	APH, CaMKII_AD, DUF4440, Kdo, PK_Tyr_Ser-Thr, Pkinase, Pkinase_fungal, SnoaL_2, SnoaL_3, SnoaL_4
`ENSMUSG00000031816`	Mthfsd	Methenyltetrahydrofolate synthase domain-containing protein	4	2	1	16.0	Mixed	5-FTHF_cyc-lig, RRM_1
`ENSMUSG00000054690`	Emcn	Endomucin	2	2	1	5.3	Ref	DUF2207, DUF6479, Endomucin, IPP-2, Psg1, RIFIN, Stevor
`ENSMUSG00000031750`	Il34	Interleukin-34	2	2	1	85.6	Novel	IL34, PRIMA1
`ENSMUSG00000020932`	Gfap	Glial fibrillary acidic protein	2	2	1	61.5	Ref	Apolipoprotein, BLOC1_2, CENP-F_leu_zip, DUF1664, DUF4407, Fib_alpha, Filament, Filament_head, GAS, HU-CCDC81_bac_2, Rsa3, Snu56_snRNP, TPR_MLP1_2
`ENSMUSG00000027805`	PFN2	Profilin-2	2	2	1	553.6	Ref	DUF2076, DUF4106, Profilin
`ENSMUSG00000063445`	Nmral1	NmrA-like family domain-containing protein 1	2	2	1	32.1	Ref	3Beta_HSD, BRK, Epimerase, F420_oxidored, HTH_3, Helo_like_N, KR, NAD_binding_10, NmrA, Semialdhyde_dh, Shikimate_DH, TrkA_N, adh_short
`ENSMUSG00000063802`	Hspbp1	Hsp70-binding protein 1	4	2	1	200.6	Novel	Arm, CLIP_SPH_mas, Fes1, HEAT, HEAT_EZ, PPTA, Rcd1
`ENSMUSG00000025786`	Zdhhc3	Palmitoyltransferase ZDHHC3	2	2	1	18.7	Ref	DHHC, DUF3615, DUF898, GPDPase_memb
`ENSMUSG00000022858`	TRA2B	Transformer-2 protein homolog beta	2	2	1	18.7	Novel	Apt1, NPR3, Pneumo_att_G, Presenilin, RRM_1, RRM_3, RRM_occluded
`ENSMUSG00000006299`	AAMP	Angio-associated migratory cell protein	2	2	1	272.8	Ref	ANAPC4_WD40, DUF5921, Ge1_WD40, NBCH_WD40, Nup160, PQQ, RAB3GAP2_N, WD40, WD40_like, eIF2A
`ENSMUSG00000039660`	Spout1	28S rRNA (uridine-N(3))-methyltransferase	2	2	1	53.5	Ref	AP1AR, DUF2514, Methyltrn_RNA_3
`ENSMUSG00000026860`	Sh3glb2	Endophilin-B2	5	2	1	181.9	Mixed	BAR, BAR_2, BAR_3, IMD, SH3_1, SH3_2, SH3_9
`ENSMUSG00000021103`	Mnat1	CDK-activating kinase assembly factor MAT1	2	2	1	13.4	Ref	Auto_anti-p27, DNA_ligase_ZBD, DUF1272, DUF3793, DZR, DZR_2, LMBR1, MAT1, Mu-like_Com, PUB_1, Prok-RING_1, Prok-RING_4, UPF0547, zf-ACC, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_5, zf-P11, zf-RING_2, zf-RING_4, zf-RING_5, zf-RING_UBOX, zf-TFIIB, zf-UDP, zinc-ribbons_6
`ENSMUSG00000026019`	Wdr12	Ribosome biogenesis protein WDR12	2	2	1	0.0	Ref	ANAPC4_WD40, DUF6739, NBCH_WD40, NLE, NRDE-2, NUDIX_4, Pap_E4, Pneumo_att_G, RR_TM4-6, Serinc, WD40, Zip
`ENSMUSG00000024037`	Wdr4	tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit WDR4	2	2	1	5.3	Ref	Nup160, WD40
`ENSMUSG00000035297`	Cops4	COP9 signalosome complex subunit 4	3	2	1	139.1	Novel	CSN4_RPN5_eIF3a, DinB, PCI, RPN7, TPR_12, TPR_14, TPR_7, TPR_8, YabA
`ENSMUSG00000015672`	Mrpl32	Large ribosomal subunit protein bL32m	2	2	1	24.1	Ref	Caa3_CtaG, DUF5347, DZR, NRDD, RecR, Ribosomal_L32p, UPF0547, zf-RING_7, zf-ribbon_3
`ENSMUSG00000071655`	Ubxn1	UBX domain-containing protein 1	3	2	1	288.8	Ref	CDC45, Presenilin, Selenoprotein_S, UBA, UBX, eIF3_subunit
`ENSMUSG00000025512`	Chid1	Chitinase domain-containing protein 1	2	2	1	13.4	Ref	CoA_binding_2, Glyco_hydro_18, Glyco_hydro_85
`ENSMUSG00000034194`	R3hcc1	R3H and coiled-coil domain-containing protein 1	2	2	1	42.8	Ref	BUD22, CSRNP_N, DUF4407, Dicty_REP, NCBP3, R3H, SDA1
`ENSMUSG00000039233`	Tbce	Tubulin-specific chaperone E	2	2	1	34.8	Ref	CAP_GLY, LRR_1, LRR_4, LRR_6, LRR_8, LRR_9, Ubiquitin_2
`ENSMUSG00000039105`	Atp6v1g1	V-type proton ATPase subunit G 1	2	2	1	593.7	Novel	ATP-synt_B, Borrelia_P83, CDC14, CSRNP_N, DCB, DUF2164, DUF2570, DUF6080, FdhE, KxDL, MPM1, Muted, OmpH, Phage_Mu_Gam, RNase_Y_N, RRF, V-ATPase_G, V-ATPase_G_2
`ENSMUSG00000030744`	RPS3	Small ribosomal subunit protein uS3	2	2	1	270.1	Ref	KH_2, Ribosomal_S3_C
`ENSMUSG00000024369`	Nelfe	Negative elongation factor E	3	2	1	21.4	Ref	Nup35_RRM_2, RPA43_OB, RRM_1, RRM_occluded
`ENSMUSG00000030126`	Tmcc1	Transmembrane and coiled-coil domains protein 1	2	2	1	18.7	Ref	C2orf69, CCDC28, CbiA, DUF1664, DUF334, DUF4131, DUF6264, Exonuc_VII_L, LMBR1, Latarcin, OmpH, Rootletin, SYMPK_PTA1_N, TMPIT, Tmemb_cc2, Tup_N, Vma12
`ENSMUSG00000027618`	Nfs1	Cysteine desulfurase	2	2	1	61.5	Ref	Aminotran_5, Beta_elim_lyase, DegT_DnrJ_EryC1, EH_Signature, Peptidase_C48, Pyridoxal_deC
`ENSMUSG00000003039`	Fam32a	Protein FAM32A	3	2	1	48.1	Mixed	AAA_10, FAM32A, HSP70, UPF0172
`ENSMUSG00000029053`	Prkcz	Protein kinase C zeta type	2	2	1	99.0	Novel	ABC1, APH, C1_1, C1_2, DZR, FTA2, Haspin_kinase, Kdo, Kinase-like, PK_Tyr_Ser-Thr, Pkinase, Pkinase_C
`ENSMUSG00000039419`	Cntnap2	Contactin-associated protein-like 2	2	2	1	32.1	Ref	Adeno_E3_CR2, COLFI, EGF, F5_F8_type_C, Laminin_G_1, Laminin_G_2, Laminin_G_3, MAP17, MARVEL, Syndecan, Tmemb_9, UstYa, hEGF
`ENSMUSG00000020171`	Yeats4	YEATS domain-containing protein 4	2	2	1	64.2	Ref	DUF1664, DivIC, FapA, Nas2_N, RIC3, SOGA, Swi5, YEATS, ZapB, pYEATS
`ENSMUSG00000032892`	Rangrf	Ran guanine nucleotide release factor	2	2	1	29.4	Ref	Mog1, UL40
`ENSMUSG00000004069`	Dnaja3	DnaJ homolog subfamily A member 3, mitochondrial	2	2	1	40.1	Ref	Anti-TRAP, DnaJ, DnaJ_C, DnaJ_CXXCXGXG, Endonuclease_7, FtrD-like
`ENSMUSG00000005483`	Dnajb1	DnaJ homolog subfamily B member 1	2	2	1	5.3	Ref	DnaJ, DnaJ_C
`ENSMUSG00000031367`	AP1S2	AP-1 complex subunit sigma-2	3	2	1	16.0	Ref	Clat_adaptor_s, PulA_N1
`ENSMUSG00000034875`	Nudt19	Acyl-coenzyme A diphosphatase NUDT19	2	2	1	235.4	Novel	DUF4909, NUDIX
`ENSMUSG00000026289`	Atg16l1	Autophagy-related protein 16-1	2	2	1	5.3	Novel	ANAPC4_WD40, APEH_N, ATG16, Fez1, KASH_CCD, NBCH_WD40, Nup160, Peptidase_M15_4, TolB_like, V_ATPase_I, WD40, eIF2A
`ENSMUSG00000030605`	Mfge8	Lactadherin	2	2	1	304.9	Ref	EGF, EGF_2, F5_F8_type_C, Laminin_EGF, Muskelin_N, cEGF, hEGF
`ENSMUSG00000003421`	Nosip	Nitric oxide synthase-interacting protein	2	2	1	74.9	Ref	PWI, Rtf2, U-box, zf-NOSIP, zf-Nse
`ENSMUSG00000036371`	Serbp1	SERPINE1 mRNA-binding protein 1	4	2	1	112.3	Ref	HABP4_PAI-RBP1, IHABP4_N
`ENSMUSG00000006575`	Rundc3a	RUN domain-containing protein 3A	3	2	1	96.3	Ref	DUF3450, DUF5595, Phage_GP20, RUN, UPF0242, WT1
`ENSMUSG00000015937`	Macroh2a1	Core histone macro-H2A.1	3	2	1	56.2	Ref	CBFD_NFYB_HMF, Clp_N, DUF1764, Histone, Histone_H2A_C, Macro, YihI
`ENSMUSG00000061559`	Skic8	Superkiller complex protein 8	3	2	1	157.8	Ref	ANAPC4_WD40, Cytochrom_D1, DUF2415, GSDH, Ge1_WD40, NBCH_WD40, Nucleoporin_N, Nup160, PD40, WD40, WD40_like, eIF2A
`ENSMUSG00000003873`	Bax	Apoptosis regulator BAX	3	2	1	123.0	Novel	BID, Bcl-2, Bclx_interact, CF222
`ENSMUSG00000050891`	Tatdn1	Deoxyribonuclease TATDN1	2	2	1	115.0	Ref	MGAT2, TatD_DNase, ToxB_N
`ENSMUSG00000066456`	Hmgn3	High mobility group nucleosome-binding domain-containing protein 3	2	2	1	275.5	Ref	HMG14_17, TT_ORF2, UPF0239
`ENSMUSG00000015126`	Tsr3	18S rRNA aminocarboxypropyltransferase	6	2	1	82.9	Ref	RLI, Ribo_biogen_C
`ENSMUSG00000025137`	Pcyt2	Ethanolamine-phosphate cytidylyltransferase	2	2	1	96.3	Novel	CTP_transf_like, DUF218, FAD_syn, Oxidored_molyb, ScdA_N
`ENSMUSG00000027327`	Adissp	Adipose-secreted signaling protein	2	2	1	222.0	Novel	DUF4517, TrpBP
`ENSMUSG00000025142`	Aspscr1	Tether containing UBX domain for GLUT4	2	2	1	45.5	Ref	Cas9_C, QWRF, RBD, TUG-UBL1, UBX
`ENSMUSG00000015120`	UBE2I	SUMO-conjugating enzyme UBC9	4	2	1	40.1	Ref	Prok-E2_B, UQ_con
`ENSMUSG00000039323`	Igfbp2	Insulin-like growth factor-binding protein 2	2	2	1	48.1	Ref	Cys_rich_CWC, IGFBP, Thyroglobulin_1
`ENSMUSG00000021660`	Btf3	Transcription factor BTF3	2	2	1	762.2	Ref	LolA, Myco_19_kDa, NAC
`ENSMUSG00000023345`	Poc1a	POC1 centriolar protein homolog A	4	2	1	18.7	Mixed	ANAPC4_WD40, NBCH_WD40, WD40
`ENSMUSG00000030058`	Copg1	Coatomer subunit gamma-1	2	2	1	179.2	Ref	Adaptin_N, COP-gamma_platf, Cm_res_leader, Cnd1, Cnd3, Coatomer_g_Cpla, HEAT, HEAT_2, HEAT_EZ, HEAT_PBS, MOR2-PAG1_C, PDS5, UNC45-central
`ENSMUSG00000030086`	Chchd6	MICOS complex subunit Mic25	2	2	1	540.2	Ref	ATG14, Activator-TraM, CHCH, DUF1690, DUF3150, DUF4337, DUF6462, Exonuc_VII_L, FapA, IZUMO, MIC19_MIC25, NDUF_B7, hDGE_amylase
`ENSMUSG00000031860`	Pbx4	Pre-B-cell leukemia transcription factor 4	2	2	1	18.7	Novel	CENP-B_N, Carbpep_Y_N, DUF1479, HTH_3, Homeobox_KN, Homeodomain, ORC3_N, PBC, YdaS_antitoxin
`ENSMUSG00000015542`	Nat9	Alpha/beta-tubulin-N-acetyltransferase 9	3	2	1	37.4	Novel	Acetyltransf_1, Acetyltransf_3, Acetyltransf_7, Acetyltransf_8, FR47, PSI
`ENSMUSG00000023094`	Msrb2	Methionine-R-sulfoxide reductase B2, mitochondrial	2	2	1	104.3	Novel	HECT_2, SelR, zinc_ribbon_10
`ENSMUSG00000031765`	MT1G	Metallothionein-1G	2	2	1	1,043.0	Ref	Metallothio, SOXp
`ENSMUSG00000056737`	Capg	Macrophage-capping protein	2	2	1	5.3	Ref	Gelsolin, TB
`ENSMUSG00000019906`	Lin7a	Protein lin-7 homolog A	2	2	1	16.0	Novel	7TMR-HDED, AAA_lid_9, Antimicrobial19, CENP-Q, CREPT, DUF932, L27, PDZ, PDZ_2, PDZ_6, Peptidase_M50, Tricorn_PDZ
`ENSMUSG00000027706`	Sec62	Translocation protein SEC62	2	2	1	42.8	Novel	BUD22, CIS_TMP, DEP, Dsh_C, EOS1, RR_TM4-6, SLC12, Sec62, YhhN
`ENSMUSG00000031878`	Nae1	NEDD8-activating enzyme E1 regulatory subunit	2	2	1	56.2	Ref	E1_4HB, SEP, ThiF
`ENSMUSG00000031622`	Sin3b	Paired amphipathic helix protein Sin3b	2	2	1	112.3	Ref	DUF5077, PAH, Sin3_corepress, Sin3a_C
`ENSMUSG00000054766`	Set	Protein SET	2	2	1	18.7	Ref	DUF6279, EMP24_GP25L, Mst1_SARAH, NAP, Nore1-SARAH, OmpH, Phage_Mu_Gam, ZapB
`ENSMUSG00000099689`	ZNF383	Zinc finger protein 383	2	2	1	10.7	Ref	BHD_1, BolA, C1_4, DUF3741, DUF5830, DUF968, GAGA, KRAB, Raffinose_syn, TFIIS_C, XPA_N, Zn-ribbon_8, Zn_Tnp_IS1595, Zn_ribbon_SprT, zf-BED, zf-C2H2, zf-C2H2_11, zf-C2H2_3rep, zf-C2H2_4, zf-C2H2_6, zf-C2H2_jaz, zf-C2HE, zf-H2C2_2, zf-met, zf-trcl, zf_C2H2_13, zf_UBZ, zinc_ribbon_15
`ENSMUSG00000002289`	Angptl4	Angiopoietin-related protein 4	2	2	1	2.7	Ref	COG5, DUF16, DUF5798, DivIC, Fib_alpha, Fibrinogen_C, Helo_like_N, HrpB7, HrpJ, SlyX, UPF0242, XhlA
`ENSMUSG00000032087`	Dscaml1	Cell adhesion molecule DSCAML1	2	2	1	18.7	Ref	Adeno_E3_CR1, BiPBP_C, C1-set, C2-set, C2-set_2, ChitinaseA_N, Herpes_gE_N, I-set, Ig_2, Ig_3, Ig_4, Ig_5, Ig_6, Interfer-bind, Izumo-Ig, Pur_ac_phosph_N, Receptor_2B4, SseB, V-set, fn3, fn3_2, fn3_4, ig
`ENSMUSG00000026095`	Asnsd1	Asparagine synthetase domain-containing protein 1	2	2	1	21.4	Ref	Asn_synthase, GATase_6, GATase_7, NAD_synthase, Prefoldin_2
`ENSMUSG00000031078`	Cttn	Src substrate cortactin	2	2	1	10.7	Novel	CCDC47, DUF3602, HS1_rep, MCU, PV-1, SH3_1, SH3_2, SH3_9, TAF4, TMEM210
`ENSMUSG00000032423`	Syncrip	Heterogeneous nuclear ribonucleoprotein Q	2	2	1	21.4	Ref	Calcipressin, EBA-175_VI, PHM7_cyt, RRM_1, RRM_5, RRM_7, RRM_occluded, hnRNP_Q_AcD
`ENSMUSG00000021546`	HNRNPK	Heterogeneous nuclear ribonucleoprotein K	4	2	1	128.4	Mixed	DJ-1_PfpI, DUF719, KH_1, KH_2, KH_4, KH_5, MOEP19, ROKNT
`ENSMUSG00000051504`	CD33	Myeloid cell surface antigen CD33	3	2	1	16.0	Ref	C2-set_2, DUF2490, I-set, Ig_3, V-set, ig
`ENSMUSG00000053119`	Chmp3	Charged multivesicular body protein 3	2	2	1	66.9	Novel	DUF3915, PSD4, SPOUT_MTase, Snf7
`ENSMUSG00000022257`	Laptm4b	Lysosomal-associated transmembrane protein 4B	2	2	1	200.6	Ref	AC_N, DUF4728, DUF6419, Mtp, Saf_2TM, Tetraspanin
`ENSMUSG00000024308`	Tapbp	Tapasin	2	2	1	8.0	Ref	C1-set, Ig_3, Med5, ig
`ENSMUSG00000015749`	Anp32e	Acidic leucine-rich nuclear phosphoprotein 32 family member E	2	2	1	56.2	Ref	BUD22, FBXL18_LRR, LRR_1, LRR_4, LRR_6, LRR_8, LRR_9, SAPS
`ENSMUSG00000052926`	Rnaseh2a	Ribonuclease H2 subunit A	2	2	1	53.5	Ref	ALG11_N, PMSI1, RNase_HII, TSP_1
`ENSMUSG00000015149`	Sirt2	NAD-dependent protein deacetylase sirtuin-2	4	2	1	280.8	Mixed	RecQ_Zn_bind, SIR2, YdjO
`ENSMUSG00000078919`	Dpm1	Dolichol-phosphate mannosyltransferase subunit 1	2	2	1	40.1	Ref	Glyco_tranf_2_2, Glyco_tranf_2_3, Glyco_tranf_2_4, Glyco_transf_21, Glycos_transf_2, MapZ_C2
`ENSMUSG00000015095`	Fbxw5	F-box/WD repeat-containing protein 5	2	2	1	40.1	Novel	F-box, F-box-like, NBCH_WD40, WD40
`ENSMUSG00000037706`	Cd81	CD81 antigen	2	2	1	1,599.3	Novel	DUF6768, Tetraspanin
`ENSMUSG00000008822`	Acyp1	Acylphosphatase-1	3	2	1	104.3	Ref	Acylphosphatase, DUF2871
`ENSMUSG00000038141`	TMEM181	Transmembrane protein 181	2	2	1	2.7	Ref	Abhydrolase_9_N, DUF6709, MIG-14_Wnt-bd, YoqO
`ENSMUSG00000048495`	Tyw5	tRNA wybutosine-synthesizing protein 5	2	2	1	45.5	Ref	Cupin_8, Hpr_kinase_N, JmjC, JmjC_2
`ENSMUSG00000024055`	Cyp4f6	Cytochrome P450 4F6	2	2	1	10.7	Ref	Diacid_rec, TetR_C_28, p450
`ENSMUSG00000036112`	Metap2	Methionine aminopeptidase 2	2	2	1	104.3	Ref	CDT1_C, CpG_bind_C, Ebp2, Peptidase_M24, SPT6_acidic, TSGP1
`ENSMUSG00000033760`	Rbm4b	RNA-binding protein 4B	2	2	1	32.1	Ref	Calcipressin, DbpA, RNA_bind, RRM_1, RRM_5, RRM_7, RRM_occluded, zf-CCHC, zf-CCHC_2, zf-CCHC_3, zf-CCHC_5
`ENSMUSG00000028545`	Bend5	BEN domain-containing protein 5	2	2	1	16.0	Ref	AAA_23, BEN, DASH_Spc34, DUF349, DUF5917, DUF6594, Docking, LMBR1, OmpH, PIN_12, Sec8_exocyst, Sipho_Gp157, T4SS, TSNAXIP1_N
`ENSMUSG00000020948`	Klhl28	Kelch-like protein 28	2	2	1	10.7	Ref	BACK, BTB, Kelch_1, Kelch_2, Kelch_3, Kelch_4, Kelch_5, Kelch_6
`ENSMUSG00000074182`	Znhit6	Box C/D snoRNA protein 1	2	2	1	5.3	Ref	PolC_DP2, zf-B_box, zf-HIT
`ENSMUSG00000028729`	Ebna1bp2	Probable rRNA-processing protein EBP2	2	2	1	16.0	Ref	Ebp2, Sec39, eIF3_N
`ENSMUSG00000043259`	Fam13c	Protein FAM13C	2	2	1	5.3	Ref	DUF573, Drc1-Sld2, SOGA, SlyX, Tmemb_cc2, betaPIX_CC
`ENSMUSG00000010097`	Nxf1	Nuclear RNA export factor 1	2	2	1	34.8	Ref	DUF1319, LRR_1, LRR_4, LRR_6, LRR_8, LRR_9, NTF2, TAP_C, Tap-RNA_bind
`ENSMUSG00000033916`	Chmp2a	Charged multivesicular body protein 2a	3	2	1	489.4	Ref	FapA, Snf7, YlqD
`ENSMUSG00000044573`	Acp1	Low molecular weight phosphotyrosine protein phosphatase	2	2	1	26.7	Ref	LMWPc, MmeI_Mtase, TMEM206
`ENSMUSG00000055553`	Kxd1	KxDL motif-containing protein 1	2	2	1	80.2	Novel	KxDL, TolA_bind_tri
`ENSMUSG00000006476`	Nsmf	NMDA receptor synaptonuclear signaling and neuronal migration factor	2	2	1	56.2	Mixed	DUF4347, IQ
`ENSMUSG00000024160`	Spsb3	SPRY domain-containing SOCS box protein 3	3	2	1	109.7	Novel	SOCS_box, SPRY
`ENSMUSG00000034674`	Tdg	G/T mismatch-specific thymine DNA glycosylase	2	2	1	16.0	Ref	Herpes_DNAp_acc, UDG
`ENSMUSG00000034757`	Tmub2	Transmembrane and ubiquitin-like domain-containing protein 2	3	2	1	64.2	Ref	CD52, DUF6232, Dsc3_N, Rad60-SLD_2, ubiquitin
`ENSMUSG00000050711`	Scg2	Secretogranin-2	2	2	1	61.5	Ref	Granin, IF2_N, eIF3_N
`ENSMUSG00000089917`	Uckl1	Uridine-cytidine kinase-like 1	2	2	1	34.8	Ref	AAA_17, AAA_18, AAA_33, ABC_tran, CPT, CoaE, Cytidylate_kin, PRK, UPRTase, Zeta_toxin
`ENSMUSG00000028035`	Dnajb4	DnaJ homolog subfamily B member 4	3	2	1	10.7	Novel	DnaJ, DnaJ_C
`ENSMUSG00000025264`	Tsr2	Pre-rRNA-processing protein TSR2 homolog	2	2	1	16.0	Ref	DUF6279, LPD22, WGG
`ENSMUSG00000000861`	Bcl11a	BCL11 transcription factor A	3	2	1	61.5	Mixed	C1_4, FYVE, zf-C2H2, zf-C2H2_11, zf-C2H2_4, zf-HIT, zf_UBZ
`ENSMUSG00000061111`	Mcrip1	Mapk-regulated corepressor-interacting protein 1	2	2	1	307.6	Ref	DUF6551, FAM195, LAP2alpha
`ENSMUSG00000005986`	Ankrd13d	Ankyrin repeat domain-containing protein 13D	2	2	1	37.4	Ref	Ank, Ank_2, Ank_3, Ank_4, Ank_5, GPCR_chapero_1, UIM
`ENSMUSG00000020585`	Laptm4a	Lysosomal-associated transmembrane protein 4A	2	2	1	772.9	Novel	Circovir2_Orf4, DUF4728, Mtp
`ENSMUSG00000017167`	Cntnap1	Contactin-associated protein 1	2	2	1	13.4	Novel	EGF, F5_F8_type_C, Laminin_G_1, Laminin_G_2, Laminin_G_3, PRIMA1, Rrn6, hEGF
`ENSMUSG00000038000`	Acd	Adrenocortical dysplasia protein	2	2	1	16.0	Novel	OGFr_III, TEBP_beta, TPP1
`ENSMUSG00000022816`	Fstl1	Follistatin-related protein 1	2	2	1	21.4	Ref	CNNM, EF-hand_1, EF-hand_6, EF-hand_7, FOLN, Kazal_1, Kazal_2, Pacifastin_I
`ENSMUSG00000039745`	Htatip2	Protein HTATIP2	3	2	1	8.0	Mixed	Epimerase, NAD_binding_10, NAD_binding_4, Sacchrp_dh_NADP, Semialdhyde_dh
`ENSMUSG00000040667`	Nup88	Nuclear pore complex protein Nup88	2	2	1	24.1	Ref	BLOC1_2, DUF4208, DUF4404, Exonuc_VII_L, FliJ, Importin_rep_6, Latarcin, Nup88
`ENSMUSG00000004633`	CHN2	Beta-chimaerin	2	2	1	37.4	Ref	C1_1, FYVE_2, RhoGAP, SH2, zf-RING-like
`ENSMUSG00000056394`	Lig1	DNA ligase 1	2	2	1	8.0	Ref	BRD4_CDT, DDR, DNA_ligase_A_C, DNA_ligase_A_M, DNA_ligase_A_N, DNA_ligase_OB_2, HTH_43, PucR
`ENSMUSG00000031708`	Tecr	Very-long-chain enoyl-CoA reductase	3	2	1	2,241.2	Ref	Steroid_dh
`ENSMUSG00000022856`	Tmem41a	Transmembrane protein 41A	2	2	1	42.8	Ref	SNARE_assoc, ThiW
`ENSMUSG00000061032`	Rrp1	Ribosomal RNA processing protein 1 homolog A	2	2	1	433.3	Ref	DNA_pol_phi, DRIM, DUF1981, DUF4391, DUF4776, MMS19_N, Nop52, PFam54_60, Tn7_Tnp_TnsA_C
`ENSMUSG00000021728`	Emb	Embigin	2	2	1	101.6	Ref	I-set, Ig_2, Ig_3, Ig_4, V-set, ig, zf-ANAPC11, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-RING_11, zf-RING_2, zf-RING_5, zf-rbx1
`ENSMUSG00000036214`	Polr1has	RNA polymerase I subunit H	2	2	1	13.4	Ref	C4, DUF4131, DUF5520, PRIMA1
`ENSMUSG00000036352`	Ubac1	Ubiquitin-associated domain-containing protein 1	2	2	1	40.1	Ref	APG6_N, CENP-H, DUF4878, HEAT_2, Rad60-SLD_2, RecX, STI1, TCP, UBA, UBA_2, UBA_3, WIYLD, ubiquitin
`ENSMUSG00000029455`	Aldh2	Aldehyde dehydrogenase, mitochondrial	3	2	1	13.4	Novel	Aldedh, DUF1235
`ENSMUSG00000036104`	Rab3gap1	Rab3 GTPase-activating protein catalytic subunit	2	2	1	32.1	Ref	GP41, Phage_T4_gp36, Rab3-GAP_cat_C, Rab3-GTPase_cat
`ENSMUSG00000024797`	Vps51	Vacuolar protein sorting-associated protein 51 homolog	2	2	1	18.7	Ref	COG2, COG5, DUF3829, Dor1, GIT_CC, Occludin_ELL, Sec5, TMTC_DUF1736, Vps51, Vps53_N, Vps54_N, Zw10
`ENSMUSG00000020849`	YWHAE	14-3-3 protein epsilon	2	2	1	195.2	Novel	14-3-3, Orbi_VP5, Ta0938
`ENSMUSG00000060038`	Dhps	Deoxyhypusine synthase	3	2	1	72.2	Mixed	Carbam_trans_N, DS
`ENSMUSG00000053768`	Chchd3	MICOS complex subunit Mic19	2	2	1	85.6	Novel	CHCH, DUF1690, DUF885, ECH_2, Fes1, MIC19_MIC25, NDUF_B7
`ENSMUSG00000035863`	Palm	Paralemmin-1	2	2	1	58.8	Ref	FeoB_Cyto, Paralemmin
`ENSMUSG00000020646`	Mboat2	Membrane-bound glycerophospholipid O-acyltransferase 2	2	2	1	16.0	Ref	MBOAT, Plasmod_dom_1, Rota_NSP4
`ENSMUSG00000058400`	Qrfpr	Pyroglutamylated RF-amide peptide receptor	2	2	1	5.3	Ref	7TM_GPCR_Srsx, 7TM_GPCR_Srw, 7TM_GPCR_Srx, 7tm_1, 7tm_4, DUF6232, Herpes_US9, Kinocilin, MatE, T4SS_CagC
`ENSMUSG00000036242`	Armh4	Armadillo-like helical domain-containing protein 4	2	2	1	5.3	Ref	ARMH4, Autophagy_act_C, BUD22, CDC45, Csc2, DUF2428, FAM176, FYDLN_acid, MLANA, NOA36, Nop14, PI3K_1B_p101, RPA43_OB, Sigma70_ner, TFIIA, TRAP_alpha
`ENSMUSG00000021458`	Aopep	Aminopeptidase O	3	2	1	64.2	Novel	Leuk-A4-hydro_C
`ENSMUSG00000028484`	Psip1	PC4 and SFRS1-interacting protein	3	2	1	99.0	Ref	PWWP, SLT_3
`ENSMUSG00000056770`	Setd3	Actin-histidine N-methyltransferase	2	2	1	42.8	Novel	Pertussis_S2S3, Rubis-subs-bind, SET
`ENSMUSG00000021493`	PDLIM7	PDZ and LIM domain protein 7	5	2	1	181.9	Mixed	PDZ, PDZ_2, PDZ_6, Peptidase_M50
`ENSMUSG00000033735`	Spr	Sepiapterin reductase	2	2	1	179.2	Ref	KR, Nodulin-like, adh_short, adh_short_C2
`ENSMUSG00000027935`	Rab13	Ras-related protein Rab-13	2	2	1	24.1	Ref	AAA, AAA_16, AAA_22, AAA_25, AAA_33, AAA_7, ATP_bind_3, Arf, GTP_EFTU, Gtr1_RagA, MMR_HSR1, PduV-EutP, Ras, Roc, RsgA_GTPase, RuvX, SRPRB, Septin, TMP-TENI, TniB
`ENSMUSG00000060703`	Cd302	CD302 antigen	2	2	1	163.1	Ref	DUF973, IN_DBD_C, Lectin_C, UL45
`ENSMUSG00000022415`	Syngr1	Synaptogyrin-1	2	2	1	173.8	Ref	Col_cuticle_N, DUF4064, DUF805, Fig1, MARVEL, Ost5
`ENSMUSG00000026083`	Rev1	DNA repair protein REV1	2	2	1	5.3	Ref	AAA_22, ATP_bind_1, Apt1, GTP_EFTU, GTP_EFTU_D2, GTP_EFTU_D4, IF-2, MIase, MMR_HSR1, REV1_C, RRN3, Ras, Roc, RsgA_GTPase, SDA1, SRPRB, SURF2, Sec23_helical, TniB, eIF-3c_N
`ENSMUSG00000030032`	Wdr54	WD repeat-containing protein 54	2	2	1	50.8	Ref	ANAPC4_WD40, Anillin, Lgl_C, PQQ, RAB3GAP2_N, WD40
`ENSMUSG00000032186`	Tmod2	Tropomodulin-2	3	2	1	18.7	Ref	LRR_6, Peptidase_M3_N, Tropomodulin
`ENSMUSG00000042675`	YPEL3	Protein yippee-like 3	2	2	1	609.8	Mixed	DiS_P_DiS, Elf1, RIG-I_C-RD, Yippee-Mis18
`ENSMUSG00000033342`	Plppr5	Phospholipid phosphatase-related protein type 5	2	2	1	5.3	Ref	DUF6724, Mid2, PAP2, Syndecan, YwiC
`ENSMUSG00000026027`	Stradb	STE20-related kinase adapter protein beta	2	2	1	29.4	Ref	DUF1824, ISET-FN3_linker, Kinase-like, PK_Tyr_Ser-Thr, Pkinase
`ENSMUSG00000050471`	Fam118b	Protein FAM118B	2	2	1	5.3	Ref	DUF5443, SIR2_2
`ENSMUSG00000025867`	CPLX2	Complexin-2	2	2	1	427.9	Novel	AP-5_subunit_s1, Borrelia_P83, DDHD, DUF2838, DUF4407, MDM10, RNA_polI_A34, RR_TM4-6, Spt5_N, Synaphin, VIT1
`ENSMUSG00000053253`	Ndfip2	NEDD4 family-interacting protein 2 (Fragment)	2	2	1	29.4	Ref	DUF202, DUF2370, DUF2614
`ENSMUSG00000037936`	Scarb1	Scavenger receptor class B member 1	2	2	1	18.7	Ref	CD36, PorA, TMEM51
`ENSMUSG00000028461`	Ccdc107	Coiled-coil domain-containing protein 107	2	2	1	133.7	Ref	Baculo_PEP_C, DUF1043, DUF3014, DUF3638, DUF948, GAS, Mce4_CUP1, RIC3, RskA, YihI
`ENSMUSG00000031948`	Kars1	Lysine--tRNA ligase	3	2	1	29.4	Ref	DUF4407, tRNA-synt_2, tRNA-synt_2d, tRNA_anti-codon
`ENSMUSG00000014856`	Tmem208	Transmembrane protein 208	3	2	1	115.0	Ref	DUF2207, DUF4191, Halogen_Hydrol, TMEM208_SND2
`ENSMUSG00000039428`	Tmem135	Transmembrane protein 135	2	2	1	8.0	Ref	NDUF_B12, TMEM135_C_rich, Tim17
`ENSMUSG00000059436`	Max	Protein max	2	2	1	40.1	Ref	ATG16, Csm1_N, DUF4140, DUF4763, DUF5595, DUF5716, DivIC, FapA, Filament, HALZ, HLH, JAKMIP_CC3, Jnk-SapK_ap_N, SLX9, SlyX, V_ATPase_I, ZapB, bZIP_2
`ENSMUSG00000058587`	Tmod3	Tropomodulin-3	2	2	1	18.7	Ref	LRR_6, Tropomodulin, Usher
`ENSMUSG00000029433`	Diablo	Diablo IAP-binding mitochondrial protein	3	2	1	40.1	Ref	MAGE, Smac_DIABLO
`ENSMUSG00000025781`	Atp5f1c	ATP synthase F(1) complex subunit gamma, mitochondrial	3	2	1	2,064.7	Ref	ACT_4, ATP-synt
`ENSMUSG00000018160`	Med1	Mediator of RNA polymerase II transcription subunit 1	2	2	1	24.1	Ref	Med1, NIF3
`ENSMUSG00000041840`	Haus1	HAUS augmin-like complex subunit 1	2	2	1	26.7	Ref	DUF4407, SKA1, Streptin-Immun, THP2, XhlA
`ENSMUSG00000025156`	GPS1	COP9 signalosome complex subunit 1	4	2	1	149.8	Ref	Antitox_RHH, CTD10, GARP, PCI, RPN7, TPR_1, TPR_11, TPR_2
`ENSMUSG00000028991`	Mtor	Serine/threonine-protein kinase mTOR	2	2	1	24.1	Ref	ANAPC3, Adaptin_N, DUF3385, EPSP_synthase, FAT, FATC, FRB_dom, HEAT, HEAT_2, HEAT_EZ, Nipped-B_C, PI3_PI4_kinase, TAN, TPR_19, UME
`ENSMUSG00000026203`	Dnajb2	DnaJ homolog subfamily B member 2	2	2	1	53.5	Ref	DnaJ, RPT, UIM
`ENSMUSG00000030774`	Pak1	Serine/threonine-protein kinase PAK 1	4	2	1	72.2	Novel	ABC1, APH, DSHCT, DUF3741, Kdo, Kinase-like, PBD, PK_Tyr_Ser-Thr, Pkinase, Pkinase_fungal
`ENSMUSG00000024012`	Mtch1	Mitochondrial carrier homolog 1	5	2	1	115.0	Ref	Mito_carr, YdjM
`ENSMUSG00000041617`	CCDC74A	Coiled-coil domain-containing protein 74A	2	2	1	5.3	Ref	ACCA, CCDC106, CCDC74_C, CCDC92, GIT_CC, LCD1, Mto2_bdg, Pox_A_type_inc, SlyX, bZIP_2
`ENSMUSG00000030447`	Cyfip1	Cytoplasmic FMR1-interacting protein 1	2	2	1	8.0	Ref	CYRIA-B_Rac1-bd, FragX_IP, Hemocyanin_N, zf-CW
`ENSMUSG00000090015`	Znf431	Zinc finger protein 431	2	2	1	8.0	Ref	ATR13, BDHCT_assoc, BHD_1, C1_1, C1_4, KRAB, La, PT-TG, RAD51_interact, RIH_assoc, UPF0370, Vps39_2, XPA_N, ZZ, Zn-ribbon_8, Zn_ribbon_SprT, zf-C2H2, zf-C2H2_11, zf-C2H2_4, zf-C2H2_6, zf-C2H2_jaz, zf-H2C2_2, zf-Paramyx-P, zf-trcl, zf_UBZ, zinc_ribbon_15
`ENSMUSG00000022200`	Golph3	Golgi phosphoprotein 3	2	2	1	21.4	Ref	GPP34, Peptidase_M15_2
`ENSMUSG00000005699`	Pard6a	Partitioning defective 6 homolog alpha	5	2	1	64.2	Novel	PB1, PDZ, PDZ_6
`ENSMUSG00000034285`	Nipsnap1	Protein NipSnap homolog 1	2	2	1	74.9	Novel	DUF2748, NIPSNAP
`ENSMUSG00000078695`	Cisd3	CDGSH iron-sulfur domain-containing protein 3, mitochondrial	3	2	1	104.3	Ref	Inhibitor_I71, Toxin_14, zf-CDGSH
`ENSMUSG00000025878`	Uimc1	BRCA1-A complex subunit RAP80	2	2	1	5.3	Ref	DUF1645, LIDHydrolase, RAP80_UIM, Rad50_zn_hook, UBZ_FAAP20, UIM, XAF1_C, zf_UBZ
`ENSMUSG00000121485`	Gpr137b	Integral membrane protein GPR137B	3	2	1	13.4	Ref	DUF4059, SirB
`ENSMUSG00000021661`	Ankra2	Ankyrin repeat family A protein 2	2	2	1	8.0	Ref	Ank, Ank_2, Ank_3, Ank_4, Ank_5, GIP1_N
`ENSMUSG00000032869`	Psmf1	Proteasome inhibitor PI31 subunit	2	2	1	16.0	Ref	PI31_Prot_C, PI31_Prot_N
`ENSMUSG00000014232`	Cluap1	Clusterin-associated protein 1	2	2	1	18.7	Novel	ATG14, BUD22, CENP-B_dimeris, Cluap1, Jnk-SapK_ap_N, PBP1_TM, RasGAP_C, Tweety
`ENSMUSG00000002767`	Mrpl2	Large ribosomal subunit protein uL2m	2	2	1	125.7	Ref	Ribosomal_L2, Ribosomal_L2_C
`ENSMUSG00000025591`	Tma16	Translation machinery-associated protein 16	2	2	1	5.3	Ref	DUF1910, Tma16
`ENSMUSG00000041264`	Uspl1	SUMO-specific isopeptidase USPL1	2	2	1	8.0	Ref	DUF4650, Peptidase_C98, Rubredoxin_2, UCH, UCH_1
`ENSMUSG00000030083`	Abtb1	Ankyrin repeat and BTB/POZ domain-containing protein 1	2	2	1	40.1	Ref	Ank, Ank_2, Ank_3, Ank_4, Ank_5, BACK, BTB
`ENSMUSG00000024949`	Sf1	Splicing factor 1	3	2	1	42.8	Ref	KH_1, KH_5, SF1-HH, zf-CCHC, zf-CCHC_3, zf-CCHC_5
`ENSMUSG00000027942`	—	Protein C1orf43 homolog	4	2	1	16.0	Mixed	6PGD, NICE-3
`ENSMUSG00000029279`	Brdt	Bromodomain testis-specific protein	2	2	1	8.0	Ref	Apt1, BET, BRD4_CDT, Bromodomain, DUF3573, Macoilin, PRIMA1, Period_C, TMEM131_like
`ENSMUSG00000037032`	Apbb1	Amyloid beta precursor protein binding family B member 1	5	2	1	361.1	Ref	PID, PID_2, PTB, WW
`ENSMUSG00000045128`	Rpl18a	Large ribosomal subunit protein eL20	4	2	1	56.2	Ref	Ribosomal_L18A
`ENSMUSG00000109865`	Hspa14	Heat shock 70 kDa protein 14	2	2	1	48.1	Novel	Actin, DUF3944, FtsA, HSP70, MreB_Mbl, StbA
`ENSMUSG00000038880`	Mrps34	Small ribosomal subunit protein mS34	2	2	1	216.6	Ref	MRP-S34, NDK, PSI_PsaJ, Peptidase_S77
`ENSMUSG00000026921`	Egfl7	Epidermal growth factor-like protein 7	3	2	1	24.1	Mixed	EGF, EGF_2, EGF_CA, EMI, SlyX
`ENSMUSG00000052584`	SERP2	Stress-associated endoplasmic reticulum protein 2	3	2	1	243.4	Novel	DUF1206, RAMP4
`ENSMUSG00000002343`	Armc6	Armadillo repeat-containing protein 6	2	2	1	48.1	Novel	Arm, Atx10homo_assoc, CRS1_YhbY, ELMO_ARM, Mis14, UBA_3
`ENSMUSG00000092607`	Scnm1	Sodium channel modifier 1	4	2	1	24.1	Mixed	zf-SCNM1
`ENSMUSG00000014195`	Dnajc7	DnaJ homolog subfamily C member 7	2	2	1	203.3	Ref	ANAPC3, Alkyl_sulf_dimr, BTAD, DnaJ, MIT, NFACT-R_1, RPN7, RPT, Rapsyn_N, SHNi-TPR, Sel1, TPR-S, TPR_1, TPR_10, TPR_11, TPR_12, TPR_14, TPR_16, TPR_17, TPR_19, TPR_2, TPR_3, TPR_4, TPR_6, TPR_7, TPR_8, TPR_9
`ENSMUSG00000051391`	YWHAG	14-3-3 protein gamma	2	2	1	711.4	Ref	14-3-3, DUF3504, Orbi_VP5, SF3A2, SpoVR
`ENSMUSG00000022961`	Son	Protein SON	2	2	1	45.5	Ref	DND1_DSRM, G-patch, G-patch_2, RSRP
`ENSMUSG00000027180`	Fbxo3	F-box only protein 3	2	2	1	5.3	Ref	CDC45, CobT, DNA_pol_phi, DUF525, F-box, F-box-like, Nop53, RPA43_OB, SMI1_KNR4, SUKH_5, SUKH_6, Sigma70_ner
`ENSMUSG00000019868`	Vta1	Vacuolar protein sorting-associated protein VTA1 homolog	2	2	1	56.2	Ref	DAG_kinase_N, Vta1, Vta1_C
`ENSMUSG00000000743`	Chmp1a	Charged multivesicular body protein 1a	2	2	1	88.3	Novel	CsiV, Cytochrom_B562, DUF6247, Enkurin, Fes1, Ist1, Josephin, Snf7
`ENSMUSG00000024194`	Cuta	Protein CutA	7	2	1	246.0	Mixed	CutA1, DAHP_synth_1
`ENSMUSG00000057236`	RBBP4	Histone-binding protein RBBP4	6	2	1	53.5	Mixed	ANAPC4_WD40, CAF1C_H4-bd, Capsid_NCLDV, NBCH_WD40, WD40, eIF2A
`ENSMUSG00000050043`	Tmx2	Thioredoxin-related transmembrane protein 2	2	2	1	184.5	Ref	PAP2_3, Thioredoxin
`ENSMUSG00000006418`	Rnf114	E3 ubiquitin-protein ligase RNF114	2	2	1	72.2	Ref	DND1_DSRM, DUF5810, DZR_2, FOXP-CC, Methyltransf_15, Prok-RING_4, Rtf2, U-box, zf-BED, zf-C2H2, zf-C2H2_12, zf-C2H2_4, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-C3HC4_4, zf-Di19, zf-H2C2_2, zf-RING_2, zf-RING_5, zf-RING_6, zf-RING_UBOX, zf_C2HC_14
`ENSMUSG00000090266`	Mettl23	Histone-arginine methyltransferase METTL23	2	2	1	61.5	Ref	Methyltransf_16, Pox_F16
`ENSMUSG00000028973`	Abcb8	Mitochondrial potassium channel ATP-binding subunit	2	2	1	21.4	Ref	AAA, AAA_16, AAA_22, AAA_24, AAA_25, AAA_30, ABC_ATPase, ABC_membrane, ABC_membrane_2, ABC_tran, APS_kinase, DEAD, DLIC, Ploopntkinase1, SMC_N, SbcC_Walker_B, Zeta_toxin
`ENSMUSG00000019188`	Hm13	Signal peptide peptidase	3	2	1	109.7	Ref	DUF4345, Peptidase_A22B, Presenilin, SPP
`ENSMUSG00000048277`	Syngr2	Synaptogyrin-2	2	2	1	32.1	Ref	CD20, DUF1761, MARVEL
`ENSMUSG00000027466`	Rbck1	RanBP-type and C3HC4-type zinc finger-containing protein 1	3	2	1	18.7	Novel	IBR, Rad50_zn_hook, ubiquitin, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_4, zf-RING_11, zf-RING_2, zf-RING_5, zf-RING_UBOX, zf-RanBP
`ENSMUSG00000002395`	Use1	Vesicle transport protein USE1	4	2	1	291.5	Novel	AAR2, Adhes-Ig_like, Amnionless, CCB2_CCB4, Collectrin, DUF5383, MCU, MRP-L28, Orf78, Use1
`ENSMUSG00000033106`	Slc7a6os	Probable RNA polymerase II nuclear localization protein SLC7A6OS	2	2	1	10.7	Novel	Iwr1, Nop14
`ENSMUSG00000022684`	Bfar	Bifunctional apoptosis regulator	2	2	1	8.0	Novel	Baculo_IE-1, DUF2076, Prok-RING_4, SAM_1, SAM_2, SAM_PNT, zf-ANAPC11, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-C3HC4_4, zf-RING_10, zf-RING_2, zf-RING_4, zf-RING_5, zf-RING_UBOX, zf-rbx1
`ENSMUSG00000035949`	Fbxw2	F-box/WD repeat-containing protein 2	3	2	1	32.1	Ref	ANAPC4_WD40, DUF5570, F-box, F-box-like, NBCH_WD40, WD40
`ENSMUSG00000061086`	Myl4	Myosin light chain 4	5	2	1	80.2	Novel	EF-hand_1, EF-hand_6, EF-hand_7, EF-hand_8, EF-hand_9
`ENSMUSG00000027316`	Gfra4	GDNF family receptor alpha-4	4	2	1	58.8	Novel	GDNF
`ENSMUSG00000037196`	Pacrg	Parkin coregulated gene protein homolog	2	2	1	8.0	Novel	DCB, ParcG, Peptidase_C107, RNA_pol_Rpb2_2
`ENSMUSG00000017421`	Znf207	BUB3-interacting and GLEBS motif-containing protein ZNF207	2	2	1	10.7	Ref	SSP160, zf-C2H2, zf-C2H2_4, zf-FCS
`ENSMUSG00000028034`	Fubp1	Far upstream element-binding protein 1	2	2	1	26.7	Ref	DUF1897, KH_1, KH_2, KH_4, KH_5, NAD_kinase_C, SH3_12, Secretin_N
`ENSMUSG00000024587`	Nars1	Asparagine--tRNA ligase, cytoplasmic	3	2	1	131.0	Ref	Cir_N, tRNA-synt_2, tRNA-synt_2d, tRNA_anti-codon
`ENSMUSG00000022556`	Hsf1	Heat shock factor protein 1	3	2	1	45.5	Ref	HMMR_C, HSF_DNA-bind, NPV_P10, Vert_HS_TF, ZapB
`ENSMUSG00000060073`	Psma3	Proteasome subunit alpha type-3	4	2	1	631.2	Ref	Arm-DNA-bind_3, Proteasome, Proteasome_A_N
`ENSMUSG00000035228`	Ccdc106	Coiled-coil domain-containing protein 106	4	2	1	29.4	Novel	CCDC106, G6B, SOGA
`ENSMUSG00000075704`	Txnrd2	Thioredoxin reductase 2, mitochondrial	3	2	1	24.1	Ref	AlaDh_PNT_C, DAO, FAD_binding_2, FAD_oxidored, GIDA, HI0933_like, Lys_Orn_oxgnase, NAD_binding_8, Pyr_redox, Pyr_redox_2, Pyr_redox_3, Pyr_redox_dim, Thi4
`ENSMUSG00000022552`	Sharpin	Sharpin	2	2	1	101.6	Novel	Emfourin, Sharpin_PH, ubiquitin, zf-RanBP
`ENSMUSG00000030750`	Nsmce1	Non-structural maintenance of chromosomes element 1 homolog	2	2	1	61.5	Novel	AbiJ_NTD3, C1_1, DZR_2, SMC_Nse1, TMEMspv1-c74-12, TraH, zf-C3HC4, zf-C3HC4_2, zf-RING-like
`ENSMUSG00000047084`	Ngrn	Neugrin	2	2	1	115.0	Ref	Dermcidin, MRP-L20, Neugrin, Ribosomal_L29, UPF0122
`ENSMUSG00000024926`	Kat5	Histone acetyltransferase KAT5	3	2	1	29.4	Ref	Acetyltransf_1, Acetyltransf_7, MOZ_SAS, Tudor-knot, zf-MYST
`ENSMUSG00000030881`	Arfip2	Arfaptin-2	2	2	1	48.1	Ref	Arfaptin, BAR, BAR_2, BAR_3, Blo-t-5, TPR_MLP1_2
`ENSMUSG00000021647`	Cartpt	Cocaine- and amphetamine-regulated transcript protein	2	2	1	16.0	Ref	CART, DUF2114, DUF713, Opy2, Spore_Cse60
`ENSMUSG00000031516`	Dctn6	Dynactin subunit 6	2	2	1	307.6	Novel	Fucokinase, Hexapep
`ENSMUSG00000026096`	Osgepl1	tRNA N6-adenosine threonylcarbamoyltransferase, mitochondrial	2	2	1	16.0	Ref	BcrAD_BadFG, CheC, DUF3659, NADH_4Fe-4S, TsaD
`ENSMUSG00000062270`	Morf4l1	Mortality factor 4-like protein 1	3	2	1	141.7	Novel	MRG, Tudor-knot
`ENSMUSG00000027900`	Dram2	DNA damage-regulated autophagy modulator protein 2	3	2	1	8.0	Ref	Bac_export_2, DUF2613, Frag1
`ENSMUSG00000031347`	Cetn2	Centrin-2	2	2	1	50.8	Ref	Asp-B-Hydro_N, CNNM, Caleosin, DUF4601, DUF6694, Dockerin_1, EF-hand_1, EF-hand_11, EF-hand_14, EF-hand_4, EF-hand_5, EF-hand_6, EF-hand_7, EF-hand_8, EF-hand_9, Fin, HerA_C, LETM1_RBD, RTP, SRI, SUB1_ProdP9, SurA_N_2, SurA_N_3
`ENSMUSG00000063457`	RPS15	Small ribosomal subunit protein uS19	2	2	1	1,366.6	Ref	LCAT, MAP65_ASE1, Prok_Ub, Ribosomal_S19
`ENSMUSG00000079317`	TRAPPC2	Trafficking protein particle complex subunit 2	2	2	1	128.4	Ref	DUF4984, Sedlin_N, Sybindin
`ENSMUSG00000078427`	Sarnp	SAP domain-containing ribonucleoprotein	2	2	1	176.5	Novel	HTH_Tnp_IS630, LETM1_RBD, SAP, SAP_new25, Tho1_MOS11_C
`ENSMUSG00000030401`	Rtn2	Reticulon-2	2	2	1	48.1	Ref	Babuvirus_MP, DUF592, Reticulon, mono-CXXC
`ENSMUSG00000022559`	Fbxl6	F-box/LRR-repeat protein 6	2	2	1	16.0	Ref	F-box, F-box-like, LRR_4, LRR_6, LRR_8
`ENSMUSG00000020785`	Camkk1	Calcium/calmodulin-dependent protein kinase kinase 1	2	2	1	61.5	Ref	ABC1, APH, DHDPS, Kinase-like, PK_Tyr_Ser-Thr, Pkinase, Pkinase_fungal
`ENSMUSG00000029363`	Rfc5	Replication factor C subunit 5	2	2	1	5.3	Ref	AAA, AAA_11, AAA_14, AAA_16, AAA_19, AAA_22, AAA_24, AAA_25, AAA_3, AAA_30, AAA_5, AAA_7, AAA_assoc_2, ATPase_2, DEAD, DNA_pol3_delta, DNA_pol3_delta2, DUF815, Mg_chelatase, PhoH, RNA_helicase, Rad17, Rep_fac_C, ResIII, RuvB_N, T2SSE, TIP49, TniB, bpMoxR
`ENSMUSG00000001943`	Vsig2	V-set and immunoglobulin domain-containing protein 2	2	2	1	16.0	Ref	I-set, Ig_2, Ig_3, Izumo-Ig, Rick_17kDa_Anti, V-set, ig
`ENSMUSG00000026245`	Farsb	Phenylalanine--tRNA ligase beta subunit	2	2	1	58.8	Ref	B3_4, B5, EAD7, PhetRS_B1, tRNA_synthFbeta
`ENSMUSG00000060036`	Rpl3	Large ribosomal subunit protein uL3	2	2	1	2,949.9	Ref	DUF6709, Ribosomal_L3
`ENSMUSG00000004865`	Srpk1	SRSF protein kinase 1	2	2	1	21.4	Ref	DUF5685, HNOB, NatA_aux_su, PK_Tyr_Ser-Thr, Pkinase, Pkinase_fungal, RIO1, TMEM213
`ENSMUSG00000029319`	Coq2	4-hydroxybenzoate polyprenyltransferase, mitochondrial	2	2	1	77.6	Novel	DUF2798, UbiA
`ENSMUSG00000020912`	Krt12	Keratin, type I cytoskeletal 12	2	2	1	66.9	Novel	ADIP, APC_N_CC, ATG16, Bacillus_HBL, COG2, DUF1664, DUF4407, DivIC, ERM_helical, Filament, LPP, Mod_r, SKA1, Sec2p, Sec34, Tweety, Uso1_p115_C, V_ATPase_I, YabA
`ENSMUSG00000035521`	Gnptg	N-acetylglucosamine-1-phosphotransferase subunit gamma	3	2	1	112.3	Novel	AltA1, DPM3, PRKCSH, PRKCSH_1
`ENSMUSG00000024462`	Gabbr1	Gamma-aminobutyric acid type B receptor subunit 1	3	2	1	42.8	Mixed	Sushi
`ENSMUSG00000015804`	Med28	Mediator of RNA polymerase II transcription subunit 28	2	2	1	93.6	Ref	DUF6530, Filament, HSCB_C, HTH_34, Med28, NPV_P10, PSD2, Sec2p
`ENSMUSG00000034570`	Inpp5j	Phosphatidylinositol 4,5-bisphosphate 5-phosphatase A	2	2	1	2.7	Novel	Exo_endo_phos, MRI, SKICH
`ENSMUSG00000121778`	Ube2v1	Ubiquitin-conjugating enzyme E2 variant 1	3	2	1	497.4	Ref	UQ_con
`ENSMUSG00000038876`	Echdc1	Ethylmalonyl-CoA decarboxylase	3	2	1	80.2	Ref	ECH_1, ECH_2, Prok-RING_4, Sp-DndD, WWE, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-C3HC4_4, zf-RING_10, zf-RING_2, zf-RING_5, zf-RING_UBOX
`ENSMUSG00000020918`	Kat2a	Histone acetyltransferase KAT2A	2	2	1	10.7	Ref	Acetyltransf_1, Acetyltransf_10, Acetyltransf_7, Bromodomain, Chalcone_N, PCAF_N, T2SSM
`ENSMUSG00000008305`	Tle1	Transducin-like enhancer protein 1	2	2	1	16.0	Ref	ANAPC4_WD40, Cytochrom_D1, HALZ, NBCH_WD40, Nup160, Ribosomal_S18, Spc24, TLE_N, Transketolase_N, WD40, WD40_like
`ENSMUSG00000026333`	Gin1	Gypsy retrotransposon integrase-like protein 1	2	2	1	2.7	Ref	Cytochrom_D1, Integrase_H2C2, rve, zf-H2C2
`ENSMUSG00000004268`	Emg1	Ribosomal RNA small subunit methyltransferase NEP1	2	2	1	147.1	Novel	CHMI, EMG1
`ENSMUSG00000020436`	Gabrg2	Gamma-aminobutyric acid receptor subunit gamma-2	2	2	1	107.0	Ref	CytochromB561_N, Neur_chan_LBD, Neur_chan_memb
`ENSMUSG00000029922`	Mkrn1	E3 ubiquitin-protein ligase makorin-1	3	2	1	24.1	Mixed	B56, MKRN1_C, Prok-RING_4, Torus, zf-ANAPC11, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_4, zf-CCCH, zf-CCCH_2, zf-CCCH_3, zf-CCCH_4, zf-RING_11, zf-RING_2, zf-RING_5, zf-RING_UBOX, zf-rbx1, zf_CCCH_4
`ENSMUSG00000029128`	Rab28	Ras-related protein Rab-28	2	2	1	82.9	Ref	Arf, DLIC, G-alpha, Gtr1_RagA, PduV-EutP, Ras, Roc, WHAMM-JMY_N, XFP_N
`ENSMUSG00000055762`	Eef1d	Elongation factor 1-delta	6	2	1	69.5	Mixed	CCD48, EF-1_beta_acid, EF1_GNE, JIP_LZII, KASH_CCD, Lzipper-MIP1, PRKG1_interact, PilJ, RF-1, Striatin, TSC22, TolA_bind_tri, Trimer_CC
`ENSMUSG00000030588`	Yif1b	Protein YIF1B	4	2	1	176.5	Mixed	Baculo_gp64, ECF_trnsprt, TMEM132D_C, YIF1
`ENSMUSG00000067873`	Htatsf1	17S U2 SnRNP complex component HTATSF1	2	2	1	69.5	Ref	Nup35_RRM, RRM_1, RRM_7
`ENSMUSG00000024962`	Vegfb	Vascular endothelial growth factor B	3	2	1	176.5	Mixed	CXCXC, PDGF, VEGF_C
`ENSMUSG00000028187`	Rpf1	Ribosome production factor 1	2	2	1	0.0	Ref	Brix, Peptidase_S30, SRP-alpha_N
`ENSMUSG00000029199`	Lias	Lipoyl synthase, mitochondrial	2	2	1	50.8	Ref	Glyco_transf_4, LIAS_N, ROS_MUCR, Radical_SAM, SVWC
`ENSMUSG00000024544`	Ldlrad4	Low-density lipoprotein receptor class A domain-containing protein 4	2	2	1	0.0	Novel	DUF2615, Ldl_recept_a, SP_C-Propep, STT3, TMEM154
`ENSMUSG00000029014`	Dnajc2	DnaJ homolog subfamily C member 2	2	2	1	13.4	Ref	DnaJ, Myb_DNA-bind_6, Myb_DNA-binding, RAC_head
`ENSMUSG00000026566`	Mpzl1	Myelin protein zero-like protein 1	2	2	1	10.7	Ref	Adeno_E3_CR2, DUF4191, EphA2_TM, I-set, Ig_2, Ig_3, MDM31_MDM32, TraL, V-set, ig
`ENSMUSG00000024175`	Tekt4	Tektin-4	2	2	1	8.0	Ref	APG6_N, ATG16, BORCS8, BST2, Baculo_PEP_C, CLZ, DUF1664, DUF2730, DivIC, EBP50_C, Mating_N, Med9, MitMem_reg, Noelin-1, PI3K_P85_iSH2, Prefoldin, Spc24, TMF_DNA_bd, Tektin, Uso1_p115_C, XhlA
`ENSMUSG00000074247`	Dda1	DET1- and DDB1-associated protein 1	3	2	1	53.5	Ref	DDA1
`ENSMUSG00000026179`	Pnkd	Probable thioesterase PNKD	3	2	1	157.8	Ref	HAGH_C, Lactamase_B, Lactamase_B_2, Lactamase_B_3
`ENSMUSG00000033918`	Parl	Presenilin-associated rhomboid-like protein, mitochondrial	2	2	1	96.3	Novel	Caps_synth_CapC, Rhomboid
`ENSMUSG00000003531`	Dgcr6	Protein DGCR6	3	2	1	149.8	Ref	DGCR6, DUF2458
`ENSMUSG00000036748`	Cuedc2	CUE domain-containing protein 2	4	2	1	246.0	Mixed	CUE, DUF6592
`ENSMUSG00000040289`	Hey1	Hairy/enhancer-of-split related with YRPW motif protein 1	2	2	1	56.2	Novel	HLH, HTH_Crp_2, Hairy_orange, dCache_2
`ENSMUSG00000021139`	Synj2bp	Synaptojanin-2-binding protein	2	2	1	5.3	Novel	COX16, Chitin_synth_1N, DUF6288, PDZ, PDZ_2, PDZ_6, Peptidase_M50
`ENSMUSG00000034403`	Pja1	E3 ubiquitin-protein ligase Praja-1	2	2	1	96.3	Mixed	Amidase, FANCL_C, zf-ANAPC11, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-Nse, zf-P11, zf-RING_11, zf-RING_16, zf-RING_2, zf-RING_5, zf-RING_UBOX, zf-rbx1
`ENSMUSG00000022771`	Ppil2	RING-type E3 ubiquitin-protein ligase PPIL2	5	2	1	13.4	Novel	Pro_isomerase, Rtf2, SUB1_ProdP9, U-box, zf-NOSIP
`ENSMUSG00000029359`	Tesc	Calcineurin B homologous protein 3	2	2	1	181.9	Ref	EF-hand_1, EF-hand_2, EF-hand_5, EF-hand_6, EF-hand_7, EF-hand_8, GIT_CC, M16C_assoc
`ENSMUSG00000033434`	Gtpbp6	Putative GTP-binding protein 6	4	2	1	13.4	Mixed	AAA_16, AAA_23, ABC_tran, DO-GTPase2, Dynamin_N, FeoB_N, GTP-bdg_M, GTP-bdg_N, HflX_C, MMR_HSR1, MobB, PduV-EutP, Rad17, TniB, cobW
`ENSMUSG00000042705`	Commd10	COMM domain-containing protein 10	2	2	1	56.2	Ref	7TMR-HDED, COMM_domain
`ENSMUSG00000021750`	Fam107a	Actin-associated protein FAM107A	5	2	1	16.0	Novel	DUF1151, KIAA1328, RNase_Y_N
`ENSMUSG00000060126`	Tpt1	Translationally-controlled tumor protein	3	2	1	205.9	Novel	DUF6613, TCTP
`ENSMUSG00000014177`	Tvp23b	Golgi apparatus membrane protein TVP23 homolog B	2	2	1	53.5	Novel	DUF846, TMC, TMEM192
`ENSMUSG00000029146`	Snx17	Sorting nexin-17	2	2	1	90.9	Ref	Cation_ATPase_N, DUF2777, FERM_M, Nod1, PX, RA, Ras_bdg_2, SNX17_FERM_C
`ENSMUSG00000005481`	Ddx39a	ATP-dependent RNA helicase DDX39A	3	2	1	16.0	Ref	CMS1, DEAD, Helicase_C, ResIII
`ENSMUSG00000037788`	Vopp1	WW domain binding protein VOPP1	2	2	1	66.9	Ref	Conotoxin_I2, FixQ, TMEM52, WBP-1, zf-His_Me_endon
`ENSMUSG00000040263`	Klhdc4	Kelch domain-containing protein 4	2	2	1	18.7	Ref	DUF4110, Kelch_1, Kelch_2, Kelch_3, Kelch_4, Kelch_5, Kelch_6
`ENSMUSG00000048076`	ARF1	ADP-ribosylation factor 1	2	2	1	703.4	Ref	6PF2K, Arf, DO-GTPase2, DUF1806, G-alpha, Gtr1_RagA, MMR_HSR1, Ras, Roc, SRPRB
`ENSMUSG00000034484`	Snx2	Sorting nexin-2	2	2	1	53.5	Novel	4HB_MCP_1, Allexi_40kDa, Arfaptin, BAR_3_WASP_bdg, BLOC1_2, DUF1870, DUF3775, DUF4618, DUF4795, Dynamin_N, Exonuc_VII_L, FAM92, FapA, Fez1, Fib_alpha, FliD_N, GrpE, HMMR_N, HR1, PX, Prefoldin_2, Sec34, Sorting_nexin, Vps5
`ENSMUSG00000040746`	Rnf167	E3 ubiquitin-protein ligase RNF167	2	2	1	123.0	Ref	CTU2, FAM176, FANCL_C, PA, PHD, Prok-RING_1, Prok-RING_4, RINGv, RecR, zf-ANAPC11, zf-C3H2C3, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-RING-like, zf-RING_11, zf-RING_15, zf-RING_16, zf-RING_2, zf-RING_4, zf-RING_5, zf-RING_UBOX, zf-UDP, zf-rbx1
`ENSMUSG00000034744`	Nagk	N-acetyl-D-glucosamine kinase	3	2	1	42.8	Novel	BcrAD_BadFG, MscS_TM
`ENSMUSG00000026442`	NFASC	Neurofascin	2	2	1	53.5	Ref	Adeno_E3_CR1, BiPBP_C, Bravo_FIGEY, C1-set, C2-set_2, DUF4998, GEVED, I-set, Ig_2, Ig_3, Ig_4, Ig_5, Ig_6, Izumo-Ig, Pur_ac_phosph_N, Receptor_2B4, TMEM154, V-set, V-set_CD47, fn3, ig
`ENSMUSG00000026643`	Nmt2	Glycylpeptide N-tetradecanoyltransferase 2	2	2	1	37.4	Ref	Acetyltransf_1, Acetyltransf_9, NMT, NMT_C, TFIIF_alpha
`ENSMUSG00000001240`	Ramp2	Receptor activity-modifying protein 2	4	2	1	131.0	Ref	RAMP
`ENSMUSG00000022037`	Clu	Clusterin	3	2	1	1,240.9	Mixed	Clusterin, LXG, Laminin_II, Mod_r, Mt_ATP-synt_B, SOAR, Syntaxin_2, T3SS_needle_E, YlqD, pAdhesive_17
`ENSMUSG00000063931`	Pepd	Xaa-Pro dipeptidase	2	2	1	64.2	Novel	AMP_N, DUF3793, Peptidase_M24
`ENSMUSG00000027406`	Idh3B	Isocitrate dehydrogenase [NAD] subunit beta, mitochondrial	3	2	1	609.8	Novel	AAA_3, Iso_dh
`ENSMUSG00000009207`	Lnpk	Endoplasmic reticulum junction formation protein lunapark	2	2	1	10.7	Ref	DUF2207, Osmo_CC, zinc_ribbon_10
`ENSMUSG00000025035`	Arl3	ADP-ribosylation factor-like protein 3	2	2	1	465.4	Ref	AAA, AAA_14, AAA_18, Arf, CdhD, DUF5975, FeoB_N, G-alpha, GTP_EFTU, Gtr1_RagA, MMR_HSR1, MeaB, NACHT, PduV-EutP, Ras, Roc, RsgA_GTPase, SRPRB, cobW
`ENSMUSG00000026701`	Prdx6	Peroxiredoxin-6	4	2	1	502.8	Ref	1-cysPrx_C, AhpC-TSA, Redoxin
`ENSMUSG00000028657`	Ppt1	Palmitoyl-protein thioesterase 1	2	2	1	21.4	Ref	Abhydrolase_1, Palm_thioest, U71
`ENSMUSG00000026767`	Mindy3	Ubiquitin carboxyl-terminal hydrolase MINDY-3	6	2	1	10.7	Mixed	EF-hand_7, MINDY-3_4_CD
`ENSMUSG00000031979`	Cog2	Conserved oligomeric Golgi complex subunit 2	2	2	1	18.7	Ref	COG2, COG2_C, COG5, DUF1664, Vps51
`ENSMUSG00000025245`	Lztfl1	Leucine zipper transcription factor-like protein 1	2	2	1	10.7	Ref	DNA_pol3_a_NI, FUSC, Hom_end_hint, Leu_zip, MAD, Methyltransf_14, Mit_ribos_Mrp51, SesA
`ENSMUSG00000001248`	Gramd1a	Protein Aster-A	2	2	1	13.4	Ref	GRAM, MHYT, Pox_LP_H2, SMG1, VASt
`ENSMUSG00000031371`	Haus7	HAUS augmin-like complex subunit 7	2	2	1	21.4	Ref	AATF-Che1, FlgN, Nsp1_C, Plant_NMP1, YabA
`ENSMUSG00000035953`	Pip4p1	Type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase	3	2	1	58.8	Ref	FlhC, Herpes_US9, Tmemb_55A, zinc_ribbon_12
`ENSMUSG00000029713`	GNB2	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-2	2	2	1	294.2	Ref	ANAPC4_WD40, CaM_bind, Cytochrom_D1, Ge1_WD40, NBCH_WD40, WD40, WD40_like
`ENSMUSG00000020925`	Ccdc43	Coiled-coil domain-containing protein 43	2	2	1	37.4	Ref	RepL, SPECT1, TetR_C_28
`ENSMUSG00000036819`	Jmjd4	2-oxoglutarate and iron-dependent oxygenase JMJD4	2	2	1	0.0	Ref	Cupin_8, DUF4314, JmjC, JmjC_2, SWIM
`ENSMUSG00000027282`	Mtch2	Mitochondrial carrier homolog 2	3	2	1	334.3	Ref	Mito_carr
`ENSMUSG00000032121`	Tmem218	Transmembrane protein 218	2	2	1	5.3	Novel	CbiQ, DUF4395, DUF6418
`ENSMUSG00000035443`	Thyn1	Thymocyte nuclear protein 1	5	2	1	117.7	Mixed	EVE
`ENSMUSG00000004187`	Kifc2	Kinesin-like protein KIFC2	2	2	1	48.1	Novel	Baculo_PEP_C, DUF4407, DUF6779, Fib_alpha, Kinesin, Microtub_bd, Rubis-subs-bind, TACC_C, THOC7
`ENSMUSG00000029213`	Commd8	COMM domain-containing protein 8	3	2	1	13.4	Mixed	COMM_domain, P22_AR_C
`ENSMUSG00000041199`	Rpusd1	RNA pseudouridylate synthase domain-containing protein 1	4	2	1	72.2	Ref	PseudoU_synth_2
`ENSMUSG00000053453`	Thoc7	THO complex subunit 7 homolog	3	2	1	163.1	Novel	AATF-Che1, COG2, Com_YlbF, DASH_Dad2, DUF1664, DUF4407, EcoEI_R_C, FapA, Med9, THOC7, Tup_N, UPF0193, V_ATPase_I, ubiquitin
`ENSMUSG00000035849`	Krt222	Keratin-like protein KRT222	2	2	1	32.1	Ref	Allexi_40kDa, BCAS2, Baculo_PEP_C, Band_7, DUF1664, DUF2381, DUF4140, DUF5830, DUF6594, DUF745, FUSC, Fez1, Filament, FlaC_arch, KMP11, Macoilin, TPR_MLP1_2, V_ATPase_I
`ENSMUSG00000026171`	Rnf25	E3 ubiquitin-protein ligase RNF25	2	2	1	40.1	Ref	CpXC, DUF3785, Papo_T_antigen, RWD, zf-ANAPC11, zf-C3HC4, zf-C3HC4_2, zf-C3HC4_3, zf-RING_11, zf-RING_2, zf-RING_5, zf-RING_UBOX, zf-rbx1
`ENSMUSG00000030846`	TIAL1	Nucleolysin TIAR	2	2	1	21.4	Ref	Calcipressin, DbpA, Nup35_RRM, Nup35_RRM_2, RRM_1, RRM_3, RRM_7, RRM_occluded, XOO_2897-deam
`ENSMUSG00000026790`	Odf2	Outer dense fiber protein 2	2	2	1	5.3	Ref	ADIP, Filament, GAS, Mt_ATP-synt_D, TMF_DNA_bd, TMF_TATA_bd
`ENSMUSG00000038871`	Bpgm	Bisphosphoglycerate mutase	3	2	1	18.7	Novel	Exc, His_Phos_1
`ENSMUSG00000022526`	ZNF251	Zinc finger protein 251	2	2	1	24.1	Ref	ADK_lid, BolA, C1_2, C1_4, COX5B, DNA_RNApol_7kD, DUF2039, DUF2175, DUF3268, DUF5830, DUF6076, DUF6300, DZR, FYVE, GpA_ATPase, HNH, HVO_2753_ZBP, HypA, KRAB, MCM_OB, MRP-S23, NinF, PHD, XPA_N, YhfH, Zn-ribbon_8, Zn_Tnp_IS1595, Zn_ribbon_SprT, Zn_ribbon_recom, zf-AN1, zf-BED, zf-C2H2, zf-C2H2_11, zf-C2H2_3rep, zf-C2H2_4, zf-C2H2_6, zf-C2H2_jaz, zf-H2C2_2, zf-MYND, zf-MYST, zf-RING_15, zf-met, zf-trcl, zf_UBZ, zinc_ribbon_15
`ENSMUSG00000020608`	Smc6	Structural maintenance of chromosomes protein 6	2	2	1	5.3	Ref	AAA_15, AAA_18, AAA_21, AAA_23, AAA_27, AAA_29, ABC_tran, DUF3993, DUF5798, Exonuc_VII_L, FtsK_SpoIIIE, SMC_N, TPR_MLP1_2
`ENSMUSG00000047909`	Ankrd16	Ankyrin repeat domain-containing protein 16	2	2	1	8.0	Novel	Ank, AnkUBD, Ank_2, Ank_3, Ank_4, Ank_5, Zincin_2
`ENSMUSG00000068039`	Tcp1	T-complex protein 1 subunit alpha	3	2	1	80.2	Ref	Cpn60_TCP1
`ENSMUSG00000027206`	COPS2	COP9 signalosome complex subunit 2	2	2	1	53.5	Ref	FliS, PCI, TPR_1, TPR_2, TPR_7, YozE_SAM_like
`ENSMUSG00000036932`	Aifm1	Apoptosis-inducing factor 1, mitochondrial	2	2	1	16.0	Ref	AIF-MLS, AIF_C, Amino_oxidase, DUF3918, FAD_oxidored, HI0933_like, Lys_Orn_oxgnase, NAD_binding_8, NAD_binding_9, Pyr_redox, Pyr_redox_2, Pyr_redox_3, Reductase_C, TPP_enzyme_M, Trp_halogenase
`ENSMUSG00000024660`	INCENP	Inner centromere protein	2	2	1	8.0	Novel	Exonuc_VII_L, INCENP_ARK-bind
`ENSMUSG00000004207`	Psap	Prosaposin	3	2	1	532.2	Ref	CYSTM, DUF3456, DUF6487, SapA, SapB_1, SapB_2
`ENSMUSG00000047423`	Bles03	UPF0696 protein C11orf68 homolog	2	2	1	29.4	Ref	DUF1917, K_channel_TID
`ENSMUSG00000024845`	Tmem134	Transmembrane protein 134	4	2	1	64.2	Ref	TMEM_230_134
`ENSMUSG00000033029`	—	UPF0193 protein EVG1 homolog	2	2	1	8.0	Ref	AAA_23, UPF0193
`ENSMUSG00000062006`	Rpl34	Large ribosomal subunit protein eL34	3	2	1	99.0	Ref	Ribosomal_L34e
`ENSMUSG00000023806`	Rsph3a	Radial spoke head protein 3 homolog A	2	2	1	74.9	Ref	AICARFT_IMPCHas, Radial_spoke_3
`ENSMUSG00000021916`	Glt8d1	Glycosyltransferase 8 domain-containing protein 1	2	2	1	13.4	Ref	Glyco_transf_24, Glyco_transf_8, Trehalose_recp
`ENSMUSG00000018398`	Septin8	Septin-8	2	2	1	165.8	Ref	AAA_16, AAA_22, AAA_23, AAA_24, AAA_29, AAA_7, ABC_tran, AIG1, ATG14, ATG16, ATP_bind_1, DUF5906, DUF87, Dynamin_N, Exonuc_VII_L, GTP_EFTU, IMD, MMR_HSR1, Microtub_bd, RHD3_GTPase, RNA_helicase, Ras, Roc, RsgA_GTPase, Septin, T2SSE
`ENSMUSG00000022681`	Ntan1	Protein N-terminal asparagine amidohydrolase	8	2	1	120.4	Novel	FIST, N_Asn_amidohyd
`ENSMUSG00000041278`	Ttc1	Tetratricopeptide repeat protein 1	2	2	1	157.8	Ref	MG2, RPN7, SOAR, TPR_1, TPR_11, TPR_12, TPR_14, TPR_15, TPR_16, TPR_17, TPR_19, TPR_2, TPR_6, TPR_7, TPR_8, TPR_9, eIF3_N
`ENSMUSG00000022757`	TFG	Protein TFG	2	2	1	90.9	Novel	FAM181, MucBP, Ndc1_Nup, PB1
`ENSMUSG00000032103`	Pus3	tRNA pseudouridine(38/39) synthase	2	2	1	13.4	Ref	DUF1192, DUF5595, DivIC, HXXSHH, MYO10_CC, MerR_2, PseudoU_synth_1, WD40_alt
`ENSMUSG00000079426`	ARPC4	Actin-related protein 2/3 complex subunit 4	2	2	1	187.2	Ref	ARPC4, Cmr7A, GPS2_interact, Sm_like
`ENSMUSG00000026254`	Eif4e2	Eukaryotic translation initiation factor 4E type 2	4	2	1	24.1	Ref	FlgD, IF4E, IHABP4_N, Stm1_N
`ENSMUSG00000030621`	Me3	NADP-dependent malic enzyme, mitochondrial	3	2	1	8.0	Novel	Malic_M, malic
`ENSMUSG00000027215`	Cd82	CD82 antigen	2	2	1	45.5	Ref	DUF1310, DUF2070, DUF2157, DUF2981, DUF6057, OAD_gamma, Tetraspanin, Tmemb_55A
`ENSMUSG00000002329`	Mdp1	Magnesium-dependent phosphatase 1	2	2	2	74.9	Ref	ABM, Acid_PPase, HAD_2, Hydrolase, NIF
`ENSMUSG00000015488`	Cacfd1	Calcium channel flower homolog	4	2	4	26.7	Ref	Bacteriocin_IIc, COPI_assoc, Cg6151-P, DUF4191, TMEM72
`ENSMUSG00000027680`	FXR1	RNA-binding protein FXR1	3	2	4	13.4	Ref	Agenet, FXMRP1_C_core, FXR_C1, KH_1, KH_2, KH_4, KH_9, Tudor_2, Tudor_FRX1
`ENSMUSG00000055430`	Nap1l5	Nucleosome assembly protein 1-like 5	2	2	4	457.3	Novel	ANAPC15, Ax_dynein_light, Dicty_REP, HrpB7, Mst1_SARAH, NAP, OmpH, Phage_Mu_Gam, Voldacs
`ENSMUSG00000027012`	Dync1i2	Cytoplasmic dynein 1 intermediate chain 2	2	2	4	16.0	Ref	ANAPC4_WD40, DUF6465, Dynein_IC2, FYDLN_acid, SOBP, WD40
`ENSMUSG00000003411`	Rab3b	Ras-related protein Rab-3B	2	2	4	82.9	Ref	AAA_16, AAA_24, Arf, FeoB_N, Fin, GTP_EFTU, Gtr1_RagA, MMR_HSR1, Ras, Roc, RsgA_GTPase, SRPRB
`ENSMUSG00000025024`	Smndc1	Survival of motor neuron-related-splicing factor 30	2	2	4	24.1	Ref	ATP_sub_h, SMN, TUDOR
`ENSMUSG00000035325`	Sec31a	Protein transport protein Sec31A	2	2	4	26.7	Ref	Prp18, SRA1, Sec16_C
`ENSMUSG00000028634`	—	—	2	2	4	69.5	Novel	Activin_recp, SIP1
`ENSMUSG00000027593`	Raly	RNA-binding protein Raly	2	2	4	139.1	Novel	GRP, Herpes_capsid, RRM_1, RRM_5, RhlB
`ENSMUSG00000063275`	Hacd1	Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1	2	2	4	32.1	Ref	PTPLA, TB2_DP1_HVA22, bCoV_viroporin
`ENSMUSG00000015092`	Edf1	Endothelial differentiation-related factor 1	2	2	4	834.4	Novel	HTH_3, HTH_31, MBF1
`ENSMUSG00000063765`	Chadl	Chondroadherin-like protein	2	2	4	56.2	Ref	LRRCT, LRRNT, LRR_1, LRR_4, LRR_5, LRR_6, LRR_8, LRR_9
`ENSMUSG00000021276`	Cinp	Cyclin-dependent kinase 2-interacting protein	2	2	4	37.4	Ref	DUF5089, HAUS-augmin3, Tmemb_cc2, WDCP
`ENSMUSG00000026797`	STXBP1	Syntaxin-binding protein 1	2	2	4	476.1	Ref	DUF5344, FRB_dom, Sec1, YlbD_coat
`ENSMUSG00000024227`	—	—	2	2	4	0.0	Novel	GAP1-M, HTH_ABP1_N, IQ_SEC7_PH, PDZ, PDZ_2, PDZ_6, PH, PH_11, PH_13, PH_16, PH_20, PH_8, Peptidase_M50
`ENSMUSG00000004892`	Bcan	Brevican core protein	2	2	4	82.9	Novel	EGF, EGF_2, EGF_3, EGF_CA, I-set, Ig_2, Ig_3, Izumo-Ig, Laminin_EGF, Lectin_C, Sushi, V-set, Xlink, hEGF, ig
`ENSMUSG00000030122`	Ptms	Parathymosin	2	2	4	82.9	Novel	CCSAP, CDC27, FAM60A, Myc_N, Nop14, Nucleo_P87, Pox_Ag35, Prothymosin, RXT2_N, Sec16, Sporozoite_P67, Vfa1
`ENSMUSG00000040462`	Os9	Protein OS-9	2	2	4	66.9	Ref	PRKCSH, PRKCSH_1, RRN3, SNAP-25
`ENSMUSG00000024146`	Cript	Cysteine-rich PDZ-binding protein	2	2	4	347.7	Ref	Cas_CXXC_CXXC, Cript, DUF1272, DUF2039, DZR_2, Fin, Gin, PLATZ, Rhodanese_C, zf-RING_9, zinc_ribbon_2
`ENSMUSG00000044221`	Grsf1	G-rich sequence factor 1	2	2	4	13.4	Novel	RRM_1, zf-C2H2_assoc
`ENSMUSG00000020738`	SUMO2	Small ubiquitin-related modifier 2	2	2	4	1,639.4	Ref	DUF5010_C, Rad60-SLD, ubiquitin
`ENSMUSG00000048163`	Selplg	P-selectin glycoprotein ligand 1	2	2	4	77.6	Novel	Cadherin_C_2, Cuticle_3, DUF4689, TFIIA
`ENSMUSG00000057649`	Brd9	Bromodomain-containing protein 9	2	2	4	16.0	Novel	Bromodomain, CDC27, CDC45, Coilin_N, DUF3512, NPR3, NatA_aux_su, Presenilin, Zip
`ENSMUSG00000025041`	Nt5c2	Cytosolic purine 5'-nucleotidase	2	2	4	2.7	Ref	5_nucleotid, BCAS2, DUF2095, Filament, Filament_head, bZIP_2
`ENSMUSG00000049600`	Zbtb45	Zinc finger and BTB domain-containing protein 45	2	2	4	32.1	Novel	BTB, DUF2256, HypA, LIM, Zn-ribbon_8, Zn_Tnp_IS1595, zf-C2H2, zf-C2H2_11, zf-C2H2_2, zf-C2H2_4, zf-C2H2_6, zf-C2H2_jaz, zf-Di19, zf-H2C2_2, zf-met, zf_UBZ, zinc_ribbon_15
`ENSMUSG00000107283`	Mpv17	Mitochondrial inner membrane protein Mpv17	3	2	4	104.3	Ref	Mpv17_PMP22
`ENSMUSG00000028066`	Pmf1	Polyamine-modulated factor 1	2	2	4	13.4	Ref	BLOC1_2, BRI3BP, DUF16, DUF1664, DUF4618, Ku_PK_bind, MnmE_helical, Mod_r, Nnf1, OmpH, QueF, RmuC, SYCP2_ARLD, SlyX, TSC22, TetR_C_4, Uso1_p115_C, Wtap, betaPIX_CC
`ENSMUSG00000105703`	gag	Gag polyprotein	2	2	4	34.8	Ref	DUF6554, Gag_p12, Gag_p30, MLVIN_C
`ENSMUSG00000039771`	POLR2J	DNA-directed RNA polymerase II subunit RPB11	2	2	4	179.2	Ref	RNA_pol_L, RNA_pol_L_2, SHNi-TPR
`ENSMUSG00000022193`	Psmb5	Proteasome subunit beta type-5	2	2	4	976.2	Ref	DUF3991, Proteasome
`ENSMUSG00000024792`	Zfpl1	Zinc finger protein-like 1	2	2	4	85.6	Ref	PHD, PHD_4, zf-4CXXC_R1, zf-B_box, zf-RING_16, zf-RING_2
`ENSMUSG00000090000`	Ier3ip1	Immediate early response 3-interacting protein 1	2	2	4	173.8	Ref	TMEM192, Yos1
`ENSMUSG00000031570`	Plpp5	Phospholipid phosphatase 5	2	2	4	16.0	Ref	CoxIIa, PAP2
`ENSMUSG00000057147`	Dph6	Diphthine--ammonia ligase	2	2	4	2.7	Ref	Diphthami_syn_2, tRNA_Me_trans
`ENSMUSG00000028049`	Scamp3	Secretory carrier-associated membrane protein 3	2	2	4	109.7	Ref	HCV_NS5a_C, MIC19_MIC25, Phage_holin_3_6, SCAMP
`ENSMUSG00000024234`	Mtpap	Poly(A) RNA polymerase, mitochondrial	2	2	4	21.4	Ref	Nrap_D2, PAP_assoc, RL, TUTase, tRNA_NucTransf2
`ENSMUSG00000020832`	Eral1	GTPase Era, mitochondrial	2	2	4	26.7	Ref	AAA_16, AAA_28, AIG1, Arf, Dynamin_N, FeoB_N, G-alpha, GTP_EFTU, KH_1, KH_2, MMR_HSR1, PduV-EutP, Ras, Roc, RsgA_GTPase, SRPRB, TniB, cobW
`ENSMUSG00000031169`	Porcn	Protein-serine O-palmitoleoyltransferase porcupine	3	2	4	50.8	Ref	DUF6726, FUSC_2, MBOAT
`ENSMUSG00000032383`	Ppib	Peptidyl-prolyl cis-trans isomerase B	2	2	4	492.1	Novel	DUF4134, Pro_isomerase
`ENSMUSG00000022536`	Glyr1	Cytokine-like nuclear factor N-PAC	2	2	4	13.4	Ref	2-Hacid_dh_C, 3HCDH_N, AT_hook, ApbA, CholecysA-Rec_N, F420_oxidored, NAD_Gly3P_dh_N, NAD_binding_11, NAD_binding_2, PWWP, Sacchrp_dh_NADP, Shikimate_DH
`ENSMUSG00000027574`	Nkain4	Sodium/potassium-transporting ATPase subunit beta-1-interacting protein 4	2	2	4	192.6	Ref	12TM_1, DUF1003, NKAIN
`ENSMUSG00000026279`	Thap4	Peroxynitrite isomerase THAP4	2	2	4	5.3	Ref	Csm1_N, DUF4201, HrpB7, THAP, THAP4_heme-bd, TMF_DNA_bd, Tropomyosin_1
`ENSMUSG00000037740`	Mrps26	Small ribosomal subunit protein mS26	2	2	4	133.7	Ref	DUF1127, MAJIN, MRP-S26, PBP_sp32
`ENSMUSG00000015217`	Hmgb3	High mobility group protein B3	3	2	4	56.2	Mixed	CHDNT, CLEC16A_C, HMG_box, HMG_box_2, HMG_box_5, RNA_pol_3_Rpc31, Ribosomal_60s, YABBY
`ENSMUSG00000058833`	Rex1bd	Required for excision 1-B domain-containing protein	2	2	4	283.5	Ref	DNA_repr_REX1B, EST1, FliJ, MscS_porin
`ENSMUSG00000024122`	Pdpk1	3-phosphoinositide-dependent protein kinase 1	2	2	4	32.1	Novel	ABC1, APH, FTA2, Haspin_kinase, Kdo, Kinase-like, PH_3, PK_Tyr_Ser-Thr, Pkinase, Pkinase_fungal
`ENSMUSG00000025393`	Atp5f1b	ATP synthase F(1) complex catalytic subunit beta, mitochondrial	2	2	4	350.4	Ref	AAA, AAA_16, AAA_19, ABC_tran, ATP-synt_ab, ATP-synt_ab_N, ATPase, ATPase_2, DUF2075, DUF5832, NACHT, NB-ARC, RsgA_GTPase, T3SS_ATPase_C
`ENSMUSG00000021039`	Snw1	SNW domain-containing protein 1	2	2	4	104.3	Novel	SIR4_SID, SKIP_SNW
`ENSMUSG00000021606`	Ndufs6	NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial	2	2	4	160.5	Ref	Chitin_synth_2, Thiolase_C, zf-CHCC
`ENSMUSG00000031388`	Naa10	N-alpha-acetyltransferase 10	3	2	4	192.6	Ref	Acetyltransf_1, Acetyltransf_10, Acetyltransf_13, Acetyltransf_15, Acetyltransf_3, Acetyltransf_7, Acetyltransf_9, FR47
`ENSMUSG00000031585`	Gtf2e2	General transcription factor IIE subunit 2	2	2	4	37.4	Ref	PhoQ_Sensor, TFA2_Winged_2, TFIIE_beta
`ENSMUSG00000139891`	gag	Gag polyprotein	2	2	4	58.8	Ref	Gag_p12, Integrase_H2C2, RNase_H, rve, zf-H2C2, zf-H3C2
`ENSMUSG00000013698`	Pea15	Astrocytic phosphoprotein PEA-15	2	2	4	128.4	Ref	DED, PCAF_N
`ENSMUSG00000066037`	HNRNPR	Heterogeneous nuclear ribonucleoprotein R	2	2	4	18.7	Ref	AIRS_C, Nup35_RRM_2, RRM_1, RRM_5, RRM_7, RRM_occluded, Spo7_2_N, hnRNP_Q_AcD

DV Enrichment by Expression Level (CPM from upstream transcriptomics)

Baseline DV Rate

7.6%

592 / 7,839 genes

Peak DV Rate

13.7%

High (50-200) bin

Peak Enrichment

1.8×

vs baseline

Chi-square trend

p < 0.001

Expression Bin	Total Genes	DV Genes	DV %	Fold vs Baseline
Silent (<1) CPM	500	6	1.2%	0.2×
Low (1-10) CPM	2,191	60	2.7%	0.4×
Moderate (10-50) CPM	2,858	225	7.9%	1.0×
High (50-200) CPM	1,539	211	13.7%	1.8×
Very high (>=200) CPM	751	90	12.0%	1.6×

Bar height shows the percentage of genes that are domain-variant within each expression bin. Dashed line = overall DV rate (7.6%). If DV enrichment increases monotonically with expression, ascertainment bias (more reads = more isoform discovery) is the dominant driver. Enrichment above baseline at specific expression tiers may indicate biological enrichment beyond the detection effect. CPM from 373,908 mRNA reads (0.1% rRNA excluded).

ORF Type Distribution

NMD Prediction by ORF Type

NMD Candidates by Evidence Tier

NMD Expression Validation (CPM from upstream transcriptomics)

NMD Expression Rate

96.6%

252 / 261

Non-NMD Expression Rate

95.4%

9,657 / 10,118

Fold Difference

1.0×

non-NMD / NMD

Tier 1 NMD Expression

99.0%

102 / 103

NMD Candidates (n=261)

Non-NMD (n=10,118)

Box plots show median (line), IQR (box), and 1.5×IQR whiskers. Individual transcript CPM values are overlaid as jittered points. NMD candidates are expressed at 96.6% (median 8.0 CPM) vs 95.4% (median 13.4 CPM) for non-NMD — no evidence of NMD-mediated degradation.

Output Files

blastp.with_title.tsv HPC 1.6 MB gene_functional_summary.tsv HPC 314.9 KB isoform_annotations.tsv HPC 2.3 MB job.yml HPC 608 B pfam.domtblout HPC 22 MB results_summary.json HPC 1212.9 KB

Provenance

Execution	Expression quantification summary
Completed	2026-03-01T04:06:22+00:00

RO-Crate 1.1 Workflow RO-Crate 1.0 FAIR

This analysis is packaged as a Research Object Crate with machine-readable provenance and FAIR metadata.

RO-Crate Metadata (JSON-LD)

Show/hide raw JSON-LD

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                }
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            "name": "ONT Isoform Functional Annotation \u2014 Run #49",
            "description": "Pfam domain search, SwissProt homology, NMD prediction, and functional diversity classification for ONT transcript isoforms.",
            "datePublished": "2026-03-01",
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                "@id": "https://creativecommons.org/licenses/by/4.0/"
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                    "@id": "gene_functional_summary.tsv"
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                    "@id": "blastp.with_title.tsv"
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        {
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            "name": "specimen from organism",
            "identifier": "OBI:0001479",
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            "@type": "DefinedTerm",
            "name": "pituitary gland",
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            "@type": "DefinedTerm",
            "name": "liver",
            "identifier": "UBERON:0002107",
            "termCode": "UBERON:0002107"
        },
        {
            "@id": "http://purl.obolibrary.org/obo/OBI_0600047",
            "@type": "DefinedTerm",
            "name": "sequencing assay",
            "identifier": "OBI:0600047",
            "termCode": "OBI:0600047"
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        {
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            "name": "library preparation",
            "identifier": "OBI:0000711",
            "termCode": "OBI:0000711"
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        {
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            "name": "nucleic acid extraction",
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            "termCode": "OBI:0666667"
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            "@type": "PropertyValue",
            "name": "strain",
            "value": "DBA/2J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:2684695"
        },
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            "@id": "#annotation-269",
            "@type": "PropertyValue",
            "name": "strain",
            "value": "DBA/2J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:2684695"
        },
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            "@id": "#annotation-217",
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            "value": "cerebral cortex",
            "propertyID": "http://purl.obolibrary.org/obo/UBERON_0000956"
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            "@type": "PropertyValue",
            "name": "strain",
            "value": "C57BL/6J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:3028467"
        },
        {
            "@id": "#annotation-220",
            "@type": "PropertyValue",
            "name": "anatomy",
            "value": "cerebral cortex",
            "propertyID": "http://purl.obolibrary.org/obo/UBERON_0000956"
        },
        {
            "@id": "#annotation-219",
            "@type": "PropertyValue",
            "name": "strain",
            "value": "C57BL/6J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:3028467"
        },
        {
            "@id": "#annotation-223",
            "@type": "PropertyValue",
            "name": "anatomy",
            "value": "cerebral cortex",
            "propertyID": "http://purl.obolibrary.org/obo/UBERON_0000956"
        },
        {
            "@id": "#annotation-222",
            "@type": "PropertyValue",
            "name": "strain",
            "value": "C57BL/6J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:3028467"
        },
        {
            "@id": "#annotation-226",
            "@type": "PropertyValue",
            "name": "anatomy",
            "value": "cerebral cortex",
            "propertyID": "http://purl.obolibrary.org/obo/UBERON_0000956"
        },
        {
            "@id": "#annotation-225",
            "@type": "PropertyValue",
            "name": "strain",
            "value": "C57BL/6J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:3028467"
        },
        {
            "@id": "#annotation-229",
            "@type": "PropertyValue",
            "name": "anatomy",
            "value": "cerebral cortex",
            "propertyID": "http://purl.obolibrary.org/obo/UBERON_0000956"
        },
        {
            "@id": "#annotation-228",
            "@type": "PropertyValue",
            "name": "strain",
            "value": "DBA/2J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:2684695"
        },
        {
            "@id": "#annotation-232",
            "@type": "PropertyValue",
            "name": "anatomy",
            "value": "cerebral cortex",
            "propertyID": "http://purl.obolibrary.org/obo/UBERON_0000956"
        },
        {
            "@id": "#annotation-231",
            "@type": "PropertyValue",
            "name": "strain",
            "value": "DBA/2J",
            "propertyID": "https://www.informatics.jax.org/strain/MGI:2684695"
        },
        {
            "@id": "#annotation-235",
            "@type": "PropertyValue",
            "name": "anatomy",
            "value": "cerebral cortex",
            "propertyID": "http://purl.obolibrary.org/obo/UBERON_0000956"
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            "name": "Dissection and collection of tissue from 10-week-old male mice",
            "description": "Surgical dissection and collection of cortex, pituitary, and liver tissues from 10-week-old male mice, performed by Jackson Laboratory surgical team (Bar Harbor, ME, USA). Tissues snap-frozen and shipped internationally to Australia via dry shipper using FedEx.",
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                    "text": "# SOP: Dissection and Collection of Tissue from 10-Week-Old Male Mice\n\n**Applies to:** 10-week-old male mice (C57BL/6J, DBA/2J, or other inbred strains)\n**Tissues collected:** Cortex, pituitary, liver\n**Performed by:** Surgical team, The Jackson Laboratory, Bar Harbor, ME, USA\n**Shipping:** Dry shipper via FedEx International Priority to Australia\n\n---\n\n## Document Control\n\n* **SOP ID:** __________\n* **Version:** 1.0\n* **Effective Date:** __________\n* **Review Due:** __________\n* **Author:** __________\n* **Approved By:** __________\n\n**Change History**\n\n| Version | Date       | Description     | Author     |\n| ------- | ---------- | --------------- | ---------- |\n| 1.0     | __________ | Initial release | __________ |\n\n---\n\n## Purpose\n\nTo obtain high-quality, snap-frozen tissue samples (cortex, pituitary, liver) from 10-week-old male mice for downstream molecular analysis (RNA extraction, DNA extraction, proteomics). Tissues are collected at The Jackson Laboratory and shipped internationally to Australia under cryogenic conditions to preserve nucleic acid and protein integrity.\n\n## Scope\n\nAll personnel involved in the planning, coordination, dissection, tissue collection, and shipment of mouse tissue samples between The Jackson Laboratory (USA) and the receiving laboratory (Australia).\n\n## Responsibilities\n\n* **Principal Investigator (receiving lab):** Define experimental design, strain requirements, tissue list, and sample labelling scheme. Coordinate import permits and institutional approvals.\n* **Jackson Laboratory surgical team:** Perform euthanasia, dissection, tissue collection, snap-freezing, and packaging for shipment.\n* **Shipping coordinator:** Arrange FedEx International Priority shipment, customs documentation, and dry shipper logistics.\n* **Receiving lab personnel:** Receive shipment, verify sample integrity, transfer to long-term storage, and log receipt.\n\n## Regulatory and Ethical Requirements\n\n* All animal procedures must be approved by The Jackson Laboratory IACUC (Institutional Animal Care and Use Committee) under an active protocol.\n* Receiving institution must hold a valid **import permit** for biological materials from the relevant national authority (e.g., Australian Department of Agriculture, Fisheries and Forestry \u2014 DAFF).\n* Ensure compliance with CITES regulations (not typically applicable for laboratory mice, but verify for specific strains).\n* **Biosecurity:** Frozen tissues from SPF (Specific Pathogen Free) mice. Health monitoring reports from Jackson Laboratory should accompany the shipment.\n\n---\n\n## Materials and Equipment\n\n### At Jackson Laboratory (dissection)\n\n* Certified CO\u2082 euthanasia station or injectable anaesthetic (as per IACUC protocol)\n* Cervical dislocation tools (secondary method of euthanasia)\n* Sterile surgical instruments: fine scissors, forceps (curved and straight), scalpel with #10 and #15 blades, micro-dissecting forceps, bone rongeurs (for skull)\n* Sterile surgical drapes and pads\n* Sterile PBS (phosphate-buffered saline), ice-cold\n* Liquid nitrogen in Dewar flask\n* Pre-labelled cryovials (1.5\u20132.0 mL, cryogenic-rated, screw-cap)\n* Cryogenic labels (resistant to LN\u2082 and \u221280 \u00b0C)\n* RNAlater (optional, as backup for tissues not immediately snap-frozen)\n* Absorbent pads and biohazard waste bags\n* PPE: lab coat, gloves, face shield (for LN\u2082 handling)\n\n### For shipping\n\n* **Dry shipper** (vapour-phase liquid nitrogen dewar, e.g., MVE SC 4/2V or Taylor-Wharton CX100)\n* Cryogenic storage canes or racks\n* Secondary containment bags (leak-proof, absorbent material)\n* FedEx International Priority shipping account\n* Customs documentation: commercial invoice, packing list, import permit, health certificate, AQIS declaration\n* Temperature data logger (optional but recommended)\n\n### At receiving laboratory (Australia)\n\n* \u221280 \u00b0C ultra-low freezer with allocated space\n* Cryogenic gloves and face shield\n* Sample inventory system / database\n\n---\n\n## Procedure\n\n### 1. Pre-Dissection Planning\n\n1. Confirm **mouse strain, sex (male), and age (10 weeks \u00b1 2 days)** with Jackson Laboratory.\n2. Provide Jackson Laboratory with:\n   * Number of animals required (biological replicates)\n   * Tissue list: **cortex, pituitary, liver**\n   * Sample labelling scheme (e.g., strain_tissue_replicate: C57_CTX_1, DBA_PIT_3)\n   * Any special handling instructions (e.g., morning collection to control circadian effects)\n3. Confirm **IACUC protocol** is active and covers the planned procedures.\n4. Obtain **Australian import permit** (DAFF) for frozen animal tissues. Allow 4\u20136 weeks lead time.\n5. Arrange **FedEx International Priority** account and confirm dry shipper availability and return logistics.\n\n### 2. Animal Preparation\n\n1. House mice under standard conditions (12 h light/dark cycle, ad libitum food and water, 20\u201324 \u00b0C) for at least 1 week prior to collection to minimise stress-related transcriptomic changes.\n2. Record for each animal:\n   * Strain and stock number\n   * Date of birth and age at collection\n   * Body weight\n   * Cage number and housing conditions\n   * Any health observations or abnormalities\n3. Fast animals for **4\u20136 hours** prior to collection if liver metabolomic consistency is required (optional \u2014 confirm with PI).\n\n### 3. Euthanasia\n\n1. Euthanise by **CO\u2082 inhalation** (gradual displacement, 30\u201370% chamber volume/min) followed by **cervical dislocation** as secondary confirmation, in accordance with AVMA Guidelines and IACUC protocol.\n2. Confirm death: absence of heartbeat, respiration, and pedal reflex.\n3. Record **time of death** \u2014 proceed to dissection immediately (within 5 min) to minimise RNA degradation.\n\n### 4. Tissue Dissection and Collection\n\nPerform all dissections on a clean, sterile surface. Use separate sterile instruments for each tissue to prevent cross-contamination. Work quickly \u2014 total dissection time per animal should be **<15 minutes**.\n\n#### 4a. Brain \u2014 Cortex\n\n1. Decapitate the mouse. Remove the skin overlying the skull.\n2. Using bone rongeurs or fine scissors, carefully open the skull along the sagittal suture from the foramen magnum to the olfactory bulbs.\n3. Gently lift and peel back the skull plates to expose the brain.\n4. Using curved forceps, carefully lift the brain from the cranial cavity, severing cranial nerves and the spinal cord at the brainstem.\n5. Place the brain dorsal-side up on a cold surface (glass plate on ice or cold PBS-dampened filter paper).\n6. Using a scalpel or razor blade, remove the **cerebral cortex** by making a coronal cut posterior to the olfactory bulbs and peeling the cortical hemispheres away from the underlying structures (hippocampus, striatum, thalamus).\n7. Transfer cortex tissue immediately to a **pre-labelled cryovial**.\n8. **Snap-freeze** by plunging the cryovial into liquid nitrogen. Hold submerged for \u226530 seconds.\n\n#### 4b. Pituitary\n\n1. After removing the brain, examine the base of the skull (sella turcica).\n2. The **pituitary gland** is a small (~1 mm), pinkish structure sitting in the sella turcica.\n3. Using fine-tipped forceps, gently tease the pituitary free from the surrounding membrane and bone.\n4. Transfer to a **pre-labelled cryovial** and snap-freeze in liquid nitrogen immediately.\n5. **Note:** The pituitary is very small \u2014 take care not to lose or fragment it. If it fragments, collect all pieces.\n\n#### 4c. Liver\n\n1. Open the abdominal cavity with a midline ventral incision from pelvis to sternum.\n2. Retract the intestines to expose the liver.\n3. Identify the **left lateral lobe** (largest, most accessible lobe).\n4. Excise a **~50\u2013100 mg piece** (approximately 5 \u00d7 5 \u00d7 3 mm) from the left lateral lobe using a clean scalpel or razor blade.\n5. Briefly blot on sterile filter paper to remove excess blood.\n6. Transfer to a **pre-labelled cryovial** and snap-freeze in liquid nitrogen.\n7. If the entire liver is required, excise all lobes, record total liver weight, and snap-freeze in separate vials.\n\n### 5. Post-Dissection\n\n1. Transfer all snap-frozen cryovials from liquid nitrogen to a **\u221280 \u00b0C freezer** within 1 hour of collection.\n2. Dispose of carcasses and biological waste according to Jackson Laboratory institutional procedures.\n3. Clean and decontaminate all instruments and work surfaces.\n4. Complete the **dissection log** for each animal:\n\n   | Field | Record |\n   |---|---|\n   | Animal ID | Strain, stock #, ear tag/toe clip |\n   | Date and time of euthanasia | |\n   | Body weight (g) | |\n   | Tissues collected | Cortex, pituitary, liver |\n   | Tissue appearance | Normal / abnormal (describe) |\n   | Cryovial labels | List all vial IDs |\n   | Operator | Name and signature |\n   | Notes | Any deviations or observations |\n\n### 6. Packaging for International Shipment\n\n1. **Charge the dry shipper** with liquid nitrogen at least 24 hours before packing. Drain excess liquid \u2014 the dry shipper must contain only **vapour-phase nitrogen** (no free liquid) for air transport compliance (IATA).\n2. Verify the dry shipper holds temperature below **\u2212150 \u00b0C** and has a rated hold time sufficient for transit (typically 10\u201314 days).\n3. Place cryovials in **cryogenic canes or racks** and insert into the dry shipper.\n4. Seal the dry shipper and place in the **outer shipping container** (insulated box or hard case).\n5. Include **absorbent material** inside the secondary containment bag (regulatory requirement for biological specimens).\n6. Attach a **temperature data logger** (optional but recommended) to monitor transit conditions.\n7. Prepare shipping documentation:\n   * **Commercial invoice** (contents: frozen mouse tissue samples, no commercial value / research use only)\n   * **Packing list** (number of vials, tissue types, strain, animal IDs)\n   * **Australian import permit** (DAFF-issued)\n   * **Health monitoring report** from Jackson Laboratory (SPF status)\n   * **Dangerous goods declaration** \u2014 Class 9 UN3373 Biological Substance Category B (if required by carrier) or exempt if shipped as non-infectious, non-hazardous research specimens in a dry shipper\n   * **IATA shipper's declaration** for magnetized material (dry shipper contains no free liquid but is classified as a cryogenic vessel)\n\n### 7. Shipment\n\n1. Schedule **FedEx International Priority** pickup from Jackson Laboratory (Bar Harbor, ME, USA).\n2. Ship **Monday\u2013Wednesday** to avoid weekend delays at customs.\n3. Estimated transit time: **3\u20135 business days** (Bar Harbor \u2192 Australian destination).\n4. Provide the receiving lab with the **tracking number** and expected arrival date.\n5. Alert the receiving lab to arrange customs clearance and immediate collection upon arrival.\n\n### 8. Receipt at Australian Laboratory\n\n1. **Collect the shipment immediately** upon arrival \u2014 do not allow it to sit at the depot.\n2. Open the dry shipper and verify:\n   * All cryovials are present and match the packing list\n   * Vials are still frozen (frost visible on vials)\n   * No signs of thawing (condensation, liquid in vials)\n   * Temperature data logger reading (if included) \u2014 confirm temperature remained below \u2212150 \u00b0C throughout transit\n3. Transfer all cryovials immediately to a **\u221280 \u00b0C freezer**.\n4. Log receipt in the laboratory sample inventory:\n\n   | Field | Record |\n   |---|---|\n   | Date received | |\n   | Shipment tracking # | |\n   | Dry shipper condition | Frost present / temperature OK |\n   | Number of vials received | |\n   | Vials match packing list? | Yes / No (note discrepancies) |\n   | Storage location | Freezer ID, shelf, box, position |\n   | Received by | Name and signature |\n\n5. Return the **dry shipper** to Jackson Laboratory per agreed logistics (typically FedEx return shipment).\n\n---\n\n## Quality Control\n\n* **RNA integrity:** Downstream RNA extraction should target RIN/RQN \u2265 7.0 for all tissues. Pituitary may yield lower due to small size \u2014 RQN \u2265 5.0 acceptable.\n* **Dissection time:** Total time from euthanasia to snap-freeze should be **<15 minutes per animal**. Record actual times.\n* **Freeze-thaw:** Tissues must not undergo any freeze-thaw cycles before processing. Monitor freezer temperature logs.\n\n## Troubleshooting\n\n| Problem | Action |\n|---|---|\n| Pituitary fragmented or lost | Record in log; may need to pool from multiple animals or exclude |\n| Tissue partially thawed on arrival | Record in log; process immediately for extraction; note in downstream QC |\n| Customs delay >48 h | Contact FedEx and customs broker; verify dry shipper hold time is sufficient |\n| Dry shipper running low | If hold time is marginal, arrange emergency transfer to local \u221280 \u00b0C |\n| Import permit expired | Do not ship; renew permit before proceeding (allow 4\u20136 weeks) |\n| Animal health abnormality | Record observation; PI to decide whether to include or exclude the animal |\n\n## Waste Disposal\n\n* Mouse carcasses: dispose per Jackson Laboratory IACUC-approved procedures (incineration or licensed biological waste contractor).\n* Sharps (scalpel blades, needles): sharps container.\n* Liquid nitrogen: allow to evaporate in well-ventilated area. Do not pour down drains.\n\n## Records to Maintain\n\n* Approved IACUC protocol number\n* Australian import permit (DAFF) \u2014 copy\n* Dissection logs for each animal\n* Shipping documentation (commercial invoice, packing list, tracking number)\n* Temperature logger data (if used)\n* Sample receipt log\n* Freezer storage map / inventory database entry\n\n---\n\n**End of SOP**"
                }
            ]
        },
        {
            "@id": "#protocol-40",
            "@type": "LabProtocol",
            "name": "Simultaneous DNA and RNA extraction from animal tissues using QIAGEN AllPrep DNA/RNA Mini Kit",
            "description": "Simultaneous purification of genomic DNA and total RNA from the same tissue sample (\u226430 mg) using selective AllPrep DNA spin columns and RNeasy silica membrane technology. Includes on-column DNase treatment for RNA.",
            "url": {
                "@id": "https://www.qiagen.com/us/products/discovery-and-translational-research/dna-rna-purification/multianalyte-and-virus/allprep-dna-rna-mini-kit"
            },
            "version": "1.0",
            "category": "sample_prep",
            "step": [
                {
                    "@type": "HowToStep",
                    "position": 1,
                    "text": "# SOP: Simultaneous DNA and RNA Extraction from Animal Tissues using QIAGEN AllPrep DNA/RNA Mini Kit\n\n**Applies to:** Fresh or frozen animal tissues \u226430 mg per spin column\n**Kit:** QIAGEN AllPrep DNA/RNA Mini Kit (Cat. No. 80204)\n**Location:** __________\n\n---\n\n## Document Control\n\n* **SOP ID:** __________\n* **Version:** 1.0\n* **Effective Date:** __________\n* **Review Due:** __________\n* **Author:** __________\n* **Approved By:** __________\n\n**Change History**\n\n| Version | Date       | Description     | Author     |\n| ------- | ---------- | --------------- | ---------- |\n| 1.0     | __________ | Initial release | __________ |\n\n---\n\n## Purpose\n\nSimultaneous purification of genomic DNA and total RNA from the same tissue sample using the AllPrep DNA spin column (selective DNA binding in high-salt buffer) and the RNeasy spin column (silica membrane RNA binding). This enables paired DNA/RNA analysis from a single biopsy or tissue aliquot.\n\n## Scope\n\nAll personnel performing dual DNA/RNA extraction from animal tissues in this laboratory.\n\n## Responsibilities\n\n* **Operators:** Follow this SOP, record batch details, and maintain RNase-free practice.\n* **Supervisors:** Ensure training, PPE compliance, and kit maintenance.\n\n## Safety and RNase-Free Practice\n\n* Wear lab coat, gloves, and eye protection.\n* Work in a clean area. Treat benches and tools with RNase decontamination solution.\n* \u03b2-mercaptoethanol is toxic and has a strong odor. Handle in a fume hood.\n* Use RNase-free tubes, tips, and reagents only. Change gloves frequently.\n* Buffer RLT Plus contains guanidine isothiocyanate \u2014 harmful if swallowed or in contact with skin. Do not mix with bleach.\n\n## References\n\n* QIAGEN AllPrep DNA/RNA Mini Handbook, November 2020.\n* NASA GeneLab SOP GL-SOP-3.1 v1.0.\n\n---\n\n## Materials and Equipment\n\n**Provided in kit (Cat. No. 80204, 50 preps)**\n\n* Buffer RLT Plus\n* Buffer RW1\n* Buffer RPE (concentrate \u2014 add ethanol before first use)\n* Buffer AW1\n* Buffer AW2\n* AllPrep DNA Mini Spin Columns\n* RNeasy Mini Spin Columns\n* Collection Tubes (1.5 mL and 2 mL)\n* RNase-free Water\n\n**Not supplied**\n\n* \u03b2-mercaptoethanol (\u03b2-ME)\n* 96\u2013100% ethanol\n* 70% ethanol (freshly prepared)\n* RNase-free DNase Set (Cat. No. 79254) \u2014 for on-column DNase treatment\n* RNase/DNase-free 1.5 mL tubes\n* Microcentrifuge capable of \u226512,000 \u00d7 g\n* Homogenization tools: rotor-stator homogenizer, or TissueLyser with stainless steel beads (3\u20137 mm), or RNase-free pestle, or mortar and pestle with liquid nitrogen\n* Optional: RNase-free syringe with 20-gauge needle\n\n---\n\n## Preparations (before each extraction session)\n\n1. **Prepare Buffer RPE** (first use only)\n   * Add **4 volumes of 96\u2013100% ethanol** to the concentrate. Mark the bottle to indicate ethanol has been added.\n\n2. **Prepare fresh Lysis Buffer**\n   * Add **10 \u00b5L \u03b2-mercaptoethanol per 1 mL Buffer RLT Plus**. Mix well. Prepare only what you need; discard unused buffer.\n\n3. **Prepare DNase Mix** (per sample)\n   * Dissolve lyophilized DNase I (1500 Kunitz units) in **550 \u00b5L** RNase-free water. Mix gently. Aliquot and store at \u221220 \u00b0C (stable up to 9 months; thawed aliquots stable at 2\u20138 \u00b0C for 6 weeks).\n   * Per sample: **10 \u00b5L DNase I stock + 70 \u00b5L Buffer RDD**. Mix by gentle inversion \u2014 **do not vortex**.\n\n4. **Pre-chill microcentrifuge** to 4 \u00b0C if required for lysate clarification.\n\n5. **Heat 2 mL RNase/DNase-free water** to 70 \u00b0C for DNA elution (optional, improves yield).\n\n6. **Input tissue mass**\n\n   | Tissue type | Maximum input |\n   |---|---|\n   | Standard soft tissue | \u226430 mg |\n   | Muscle, heart, skin | \u226415 mg (LN\u2082-preserved) or \u226410 mg (RNAlater) |\n   | Liver | \u226420 mg |\n\n---\n\n## Procedure\n\n### 1. Tissue Disruption and Homogenization\n\n1. Weigh tissue (\u226430 mg). Place in a pre-chilled RNase-free tube on ice.\n2. Add **600 \u00b5L Buffer RLT Plus** (with \u03b2-ME).\n3. Homogenize immediately using one of the following:\n\n   **Option A \u2014 Rotor-stator:**\n   Homogenize for **30\u201345 s** until no visible tissue pieces remain.\n\n   **Option B \u2014 TissueLyser / bead mill:**\n   Add a single **5 mm stainless steel bead**. Run at **25 Hz for 2 \u00d7 2 min** (rotate adapter halfway).\n\n   **Option C \u2014 Mortar & pestle with liquid nitrogen:**\n   Grind tissue to a fine powder under LN\u2082. Transfer powder to a tube, let LN\u2082 evaporate, then add Buffer RLT Plus and vortex.\n\n   **Option D \u2014 Needle and syringe:**\n   Pass lysate through a **20-gauge needle** at least **5\u201310 times** until homogeneous.\n\n4. Centrifuge the lysate at **full speed (\u226512,000 \u00d7 g) for 3 min**, RT.\n5. Carefully transfer the supernatant to a new tube. **Do not disturb the pellet.**\n\n### 2. Bind Genomic DNA\n\n1. Transfer the cleared lysate onto an **AllPrep DNA Mini Spin Column** in a 2 mL collection tube.\n2. Centrifuge at **\u22658,000 \u00d7 g for 30 s**, RT.\n3. **Set aside the DNA column** at 4 \u00b0C (or RT for up to 1 h) \u2014 proceed to RNA purification first.\n4. **Save the flow-through** for RNA isolation.\n\n### 3. Adjust RNA Binding Conditions\n\n1. Add **1 volume of freshly prepared 70% ethanol** to the flow-through (e.g. 600 \u00b5L ethanol to 600 \u00b5L flow-through). For **liver tissue**, use **50% ethanol** instead.\n2. Mix well by pipetting. **Do not centrifuge.** A precipitate may form \u2014 this is normal; proceed immediately.\n\n### 4. Bind and Wash RNA\n\n1. Transfer up to **700 \u00b5L** of the sample onto an **RNeasy Mini Spin Column** in a 2 mL collection tube.\n2. Centrifuge at **\u22658,000 \u00d7 g for 15 s**, RT. Discard flow-through.\n3. Repeat until all sample has passed through the column.\n4. Add **350 \u00b5L Buffer RW1**. Centrifuge at **\u22658,000 \u00d7 g for 15 s**, RT. Discard flow-through.\n\n### 5. On-Column DNase Treatment\n\n1. Pipette **80 \u00b5L DNase Mix** (10 \u00b5L DNase I + 70 \u00b5L Buffer RDD) directly onto the membrane.\n2. Incubate at **RT for 15\u201330 min** (30 min recommended for maximum removal).\n3. Add **350 \u00b5L Buffer RW1**. Centrifuge at **\u22658,000 \u00d7 g for 15 s**, RT. Discard flow-through.\n\n### 6. Wash and Dry RNA Column\n\n1. **Replace the collection tube** with a new 2 mL tube.\n2. Add **500 \u00b5L Buffer RPE** (ethanol added). Centrifuge at **\u22658,000 \u00d7 g for 15 s**, RT. Discard flow-through.\n3. Add another **500 \u00b5L Buffer RPE**. Centrifuge at **\u22658,000 \u00d7 g for 2 min**, RT, to dry the membrane.\n4. Optional: place column in a new 2 mL tube and centrifuge at **full speed for 1 min** to eliminate residual ethanol.\n\n### 7. Elute RNA\n\n1. Place the RNeasy column in a new **1.5 mL collection tube**.\n2. Add **30\u201350 \u00b5L RNase-free water** directly onto the membrane.\n3. Incubate **1\u20135 min** at RT.\n4. Centrifuge at **\u22658,000 \u00d7 g for 1 min**, RT.\n5. Optional: repeat with a second **30 \u00b5L** RNase-free water for maximum yield. Pool eluates if the second elution is \u226530% of the first.\n6. Place RNA on ice immediately.\n\n### 8. Wash Genomic DNA Column\n\n1. Retrieve the AllPrep DNA column from step 2.\n2. Add **500 \u00b5L Buffer AW1**. Centrifuge at **\u22658,000 \u00d7 g for 15 s**, RT. Discard flow-through.\n3. Add **500 \u00b5L Buffer AW2**. Centrifuge at **full speed (\u226514,000 \u00d7 g) for 2 min**, RT, to dry the membrane.\n4. Optional: place column in a new 2 mL tube and centrifuge at **full speed for 1 min** to eliminate residual ethanol.\n\n### 9. Elute Genomic DNA\n\n1. Place the AllPrep DNA column in a new **1.5 mL collection tube**.\n2. Add **50\u2013100 \u00b5L RNase/DNase-free water** (pre-warmed to 70 \u00b0C for improved yield) directly onto the membrane.\n3. Incubate **2 min** at RT.\n4. Centrifuge at **\u22658,000 \u00d7 g for 1 min**, RT.\n5. Optional: repeat with a second **30 \u00b5L** for maximum yield.\n\n### 10. Quantification and Quality Assessment\n\n**RNA:**\n* Measure concentration by Qubit RNA assay or NanoDrop A260.\n* Record A260/280 (expect \u22651.8) and A260/230 (expect \u22651.5) ratios.\n* Assess integrity by Fragment Analyzer, Bioanalyzer, or TapeStation (target RQN/RIN \u22657 for most applications).\n\n**DNA:**\n* Measure concentration by Qubit dsDNA assay or NanoDrop A260.\n* Record A260/280 (expect ~1.8) and A260/230 ratios.\n* Assess fragment size by TapeStation Genomic DNA assay or agarose gel if required.\n\n### 11. Storage\n\n* **RNA:** Keep on ice for immediate use. Store at **\u221280 \u00b0C** for long term.\n* **DNA:** Store at **\u221220 \u00b0C** (short term) or **\u221280 \u00b0C** (long term). Avoid repeated freeze-thaw cycles.\n\n---\n\n## Special Considerations for Muscle, Heart, and Skin Tissues\n\nThese tissues are dense and fibrous, leading to potential column clogging and lower yields.\n\n* Start with **\u226415 mg** (LN\u2082-preserved) or **\u226410 mg** (RNAlater-preserved).\n* **Pre-warm** Buffers RW1 and RPE to **37 \u00b0C** for 30 min before use.\n* Centrifuge lysate **twice** at full speed to minimize cell debris.\n* Load a maximum of **400 \u00b5L** per column pass.\n* If the column clogs: incubate wash solution on column for **5 min at 37 \u00b0C** before centrifuging.\n* Elute with **pre-warmed (37 \u00b0C) water** in two passes (50 \u00b5L + 30 \u00b5L); combine if second elution is \u226530% of first.\n* If yields remain low: process **two 15 mg aliquots separately** and combine eluates.\n\n---\n\n## Acceptance and Rejection Criteria\n\n* Elution volume and expected yield range documented per tissue type.\n* No visible carryover of debris in eluate.\n* Proceed if spectrophotometric and integrity checks meet project-specific thresholds.\n\n## Expected Yields\n\n| Tissue type | DNA yield | RNA yield |\n|---|---|---|\n| Liver (20 mg) | 10\u201330 \u00b5g | 20\u201360 \u00b5g |\n| Brain (20 mg) | 5\u201315 \u00b5g | 5\u201320 \u00b5g |\n| Kidney (20 mg) | 5\u201315 \u00b5g | 10\u201340 \u00b5g |\n| Heart/Muscle (15 mg) | 2\u201310 \u00b5g | 1\u201310 \u00b5g |\n| Spleen (20 mg) | 15\u201340 \u00b5g | 15\u201360 \u00b5g |\n\n## Troubleshooting\n\n| Problem | Possible cause | Solution |\n|---|---|---|\n| Low RNA yield | Incomplete lysis | Increase homogenization time; ensure \u03b2-ME was added to RLT Plus |\n| Low RNA yield | Column overloaded | Reduce input tissue mass |\n| Low DNA yield | Insufficient lysis | Ensure thorough mechanical disruption before loading AllPrep DNA column |\n| Low DNA yield | DNA column dried out | Do not leave DNA column at RT for >1 h |\n| Genomic DNA in RNA | DNase treatment insufficient | Extend incubation to 30 min; verify DNase I activity |\n| RNA in DNA | Carryover of flow-through | Avoid disturbing interface when transferring lysate |\n| Column clogging | Tissue debris | Pre-clear lysate by additional centrifugation; reduce input mass |\n| Low A260/230 | Guanidine salt carryover | Add an extra RPE/AW2 wash step |\n\n## Waste Disposal\n\n* Collect \u03b2-mercaptoethanol and guanidine-containing wastes according to institutional chemical waste procedures.\n* Dispose of biological materials under local biosafety rules.\n* Spin columns with bound nucleic acids are non-hazardous after elution.\n\n## Records to Maintain\n\n* Date, operator, sample ID, tissue type and mass, homogenization method, reagent lot numbers, elution volume(s), DNA and RNA concentrations, purity ratios, integrity assessment, and storage location.\n* Deviations and corrective actions.\n\n---\n\n**End of SOP**"
                }
            ]
        },
        {
            "@id": "#protocol-37",
            "@type": "LabProtocol",
            "name": "PCR-cDNA Barcoding sequencing library preparation (SQK-PCB111.24)",
            "description": "Oxford Nanopore Technologies PCR-cDNA Barcoding kit (SQK-PCS111) for full-length cDNA library preparation from total RNA. Uses template-switching reverse transcription followed by PCR amplification with barcoded primers. Compatible with MinION, GridION and PromethION flow cells (R9.4.1). Superseded by SQK-PCS114 in late 2023.",
            "url": {
                "@id": "https://community.nanoporetech.com/docs/prepare/library_prep_protocols/pcr-cdna-barcoding-kit-sqk-pcb111-24"
            },
            "version": "1.0",
            "category": "sample_prep",
            "step": [
                {
                    "@type": "HowToStep",
                    "position": 1,
                    "text": "## Overview & Kit Contents\n\nThis protocol is based on the Oxford Nanopore Technologies **PCR-cDNA Barcoding Kit (SQK-PCB111.24)**, suitable for generating full-length barcoded cDNA sequencing libraries from total RNA.\n\n### Kit components\n- VNP primer, SSP primer (strand-switching primer)\n- Barcoded PCR primers (BC01\u2013BC24)\n- Rapid Adapter (RAP)\n- Elution Buffer (EB)\n\n### Required reagents (user-supplied)\n- Lambda Exonuclease\n- NEBNext Quick Ligation Reaction Buffer\n- T4 DNA Ligase 2M U/ml\n- 10 mM dNTP solution\n- LongAmp Hot Start Taq 2X Master Mix\n- Maxima H Minus Reverse Transcriptase (200 U/ul) with 5x RT Buffer\n- RNaseOUT, 40 U/ul\n- USER (Uracil-Specific Excision Reagent) Enzyme\n- Exonuclease I\n- AMPure XP beads\n\n### Required equipment\n- Thermal cycler, magnetic rack, Qubit fluorometer, vortex mixer, microcentrifuge"
                },
                {
                    "@type": "HowToStep",
                    "position": 2,
                    "text": "### Input RNA requirements\n\n- **Input**: 1\u201350 ng poly(A)+ mRNA or 50\u2013100 ng total RNA (RIN >= 7 recommended)\n- RNA should be DNase-treated if genomic DNA contamination is suspected\n- Prepare RNA in 7.5 uL nuclease-free water\n- Add 1 uL VNP primer (2 uM) and 1 uL 10 mM dNTPs\n- Incubate at **65 C for 5 min**, then snap-cool on ice for 1 min"
                },
                {
                    "@type": "HowToStep",
                    "position": 3,
                    "text": "### Reverse transcription and strand switching (~90 min)\n\n1. Prepare RT mix on ice (per reaction):\n   - 4 uL 5x RT Buffer\n   - 1 uL RNaseOUT (40 U/uL)\n   - 1 uL nuclease-free water\n   - 2 uL Strand-Switching Primer (SSP, 10 uM)\n   - 1 uL Maxima H Minus RT (200 U/uL)\n2. Add 10 uL RT mix to the 9.5 uL RNA/primer/dNTP mix (total 19.5 uL)\n3. Incubate: **42 C for 90 min** (RT + template switching), **85 C for 5 min** (inactivation), hold 4 C\n4. Add 1 uL RNase H, incubate **37 C for 10 min**\n5. Briefly centrifuge and place on ice"
                },
                {
                    "@type": "HowToStep",
                    "position": 4,
                    "text": "### PCR amplification with barcoded primers (~30 min)\n\n1. Prepare PCR reaction (50 uL total):\n   - 20 uL cDNA from RT step\n   - 25 uL LongAmp Taq 2X Master Mix\n   - 1.5 uL Barcode Primer (BC*XX*, 10 uM)\n   - 3.5 uL nuclease-free water\n2. Cycling conditions:\n   - **95 C, 3 min** (initial denaturation)\n   - **18 cycles**: 95 C 15 s / 62 C 15 s / 65 C 5 min\n   - **65 C, 6 min** (final extension)\n   - Hold at 4 C\n\n**Note**: 18 cycles is suitable for 50-100 ng total RNA input. Reduce to 14-15 cycles for higher inputs."
                },
                {
                    "@type": "HowToStep",
                    "position": 5,
                    "text": "### Bead clean-up and quantification\n\n1. Add 40 uL AMPure XP beads (0.8x ratio) to 50 uL PCR product\n2. Incubate at RT for 5 min\n3. Place on magnetic rack, wait for pellet to form\n4. Wash 2x with 200 uL freshly prepared 80% ethanol\n5. Air-dry pellet for ~30 s (do not over-dry)\n6. Elute in 12 uL EB\n7. Quantify with Qubit dsDNA HS assay\n8. Expected yield: 50-500 ng depending on input RNA quality and quantity"
                },
                {
                    "@type": "HowToStep",
                    "position": 6,
                    "text": "### Pool barcoded libraries and attach Rapid Adapter\n\n1. Pool equimolar amounts of barcoded cDNA libraries (target: 100-200 fmol total)\n2. Adjust volume to 11 uL with EB\n3. Add 1 uL Rapid Adapter (RAP)\n4. Mix gently by flicking, spin down briefly\n5. Incubate at **RT for 5 min**\n6. Library is ready for loading -- **do not vortex** after adapter attachment"
                },
                {
                    "@type": "HowToStep",
                    "position": 7,
                    "text": "### Flow cell priming and loading\n\n1. Prepare priming mix: 30 uL FCT + 1170 uL FCF\n2. Load 800 uL priming mix via priming port, wait 5 min\n3. Prepare loading mix: 12 uL adapted library + 37.5 uL SB + 25.5 uL LB\n4. Load remaining priming mix, then load 75 uL library via SpotON port\n5. Start sequencing in MinKNOW (Kit: SQK-PCB111.24, enable barcode demultiplexing)"
                },
                {
                    "@type": "HowToStep",
                    "position": 8,
                    "text": "## References\n\n- Oxford Nanopore Technologies, **\"PCR-cDNA Barcoding Kit (SQK-PCB111.24)\"**.\n- Earlier version: SQK-PCS111. Kit superseded by SQK-PCS114/SQK-PCB114 (V14 chemistry, R10.4.1 flow cells) in late 2023."
                }
            ]
        },
        {
            "@id": "#protocol-44",
            "@type": "LabProtocol",
            "name": "Fragment Analyzer \u2013 SS NGS Fragment 1-6000 bp",
            "description": "Standard sensitivity NGS fragment analysis (1-6000 bp range) on the Fragment Analyzer using the DNF-473 kit. Suitable for QC of NGS libraries, PCR products, and size-selected DNA fragments in the 1-6000 bp range.",
            "url": {
                "@id": "https://www.agilent.com/store/en_US/Prod-DNF-473-0500/DNF-473-0500"
            },
            "version": "1.0",
            "category": "measurement",
            "step": [
                {
                    "@type": "HowToStep",
                    "position": 1,
                    "text": "**Method:** `DNF-473-33 - SS NGS Fragment 1-6000bp.mthds`\n\n**Instrument:** Agilent/Advanced Analytical Fragment Analyzer (33 cm capillary array)\n\n**Analysis Mode:** NGS\n\n---\n\n## 1. Document Control\n\n* **SOP ID:** FA-NGS-1-6000bp-33cm\n* **Version:** 1.0\n* **Effective Date:** __________\n* **Prepared by:** __________\n* **Approved by:** __________\n* **Review cycle:** 12 months\n\n## 2. Purpose\n\nTo define the procedure for running standard-sensitivity NGS fragment analysis on the Fragment Analyzer using the **DNF-473-33** method. This method resolves DNA fragments in the **1\u20136,000 bp** range with standard sensitivity, suitable for:\n\n* QC of NGS libraries (amplicon, PCR-cDNA, shotgun)\n* Assessment of size selection efficiency (e.g. AMPure bead selection)\n* Verification of library size distribution prior to sequencing\n* Quantification of library concentration\n\n## 3. Scope\n\nApplies to all operators performing NGS library QC or fragment analysis in the 1\u20136,000 bp range using the DNF-473 kit on a Fragment Analyzer.\n\n## 4. Responsibilities\n\n* **Operator:** Execute this SOP, record run metadata, verify QC, and report issues.\n* **Lab lead:** Ensure training, instrument maintenance, and SOP review.\n\n## 5. Safety\n\n* Wear lab coat, safety glasses, and disposable gloves.\n* Handle gels, buffers, and plates per SDS.\n* Avoid contact with high voltage areas during operation. Only open instrument when software indicates safe.\n* Dispose of consumables as per local regulations.\n\n## 6. References\n\n* Fragment Analyzer user manual.\n* DNF-473 SS NGS Fragment 1-6000bp kit instructions.\n* Local laboratory policies for data retention and equipment maintenance.\n\n## 7. Materials and Equipment\n\n**Instrument and configuration**\n\n* Fragment Analyzer with **33 cm** capillary array.\n* Array serial and usage count recorded before each run.\n\n**Reagents and consumables**\n\n* SS NGS Fragment 1-6000bp gel cartridge compatible with `DNF-473-33`.\n* Buffer reservoirs and rinse solution as per kit.\n* 96-well plate(s) and plate seals or caps.\n* DNA ladder (supplied with kit or compatible sizing standard).\n* Nuclease-free water and low-retention tips.\n\n**Software**\n\n* ProSize 3.0 or later for data analysis and PDF report generation.\n\n## 8. Sample Requirements\n\n* DNA libraries in TE, EB, or nuclease-free water.\n* Recommended input: **0.2\u201350 ng/\u00b5L** (standard sensitivity range).\n* Minimum volume per well: as per plate format (typically 2 \u00b5L sample + diluent).\n* Avoid EDTA >5 mM, high salt, or detergents that interfere with electrokinetic injection.\n* For very low concentration libraries (<1 ng/\u00b5L, e.g. post-bead-selection), results may show concentration but no resolved peaks \u2014 this is expected and the TIM value is still informative.\n\n## 9. Pre-Run Checks\n\n1. Inspect capillary array for leaks, kinks, or salt crystallisation. Record **array serial** and **usage count**.\n2. Confirm instrument details in software:\n   * **Device Serial:** record\n   * **FA Version:** record\n3. Verify consumables:\n   * Correct **gel** loaded and **Gel Selection: Gel 1**.\n   * Fresh buffer and rinse trays in correct positions.\n4. Equilibrate reagents to room temperature if required by kit.\n5. Prepare plate map with samples, ladder, controls, and blanks.\n\n## 10. Plate Preparation\n\n1. Thaw and mix reagents gently. Spin down briefly.\n2. Aliquot ladder into designated well (typically position 12 of each row).\n3. Aliquot samples into designated wells per plate map.\n4. Include at least one blank (nuclease-free water) for baseline reference.\n5. Seal the plate. Briefly centrifuge to remove bubbles. Keep sealed until loading.\n\n## 11. Instrument Setup (Software)\n\nSet parameters as follows:\n\n| Parameter | Setting |\n|---|---|\n| Method Name | `DNF-473-33 - SS NGS Fragment 1-6000bp.mthds` |\n| Analysis Mode | `NGS` |\n| Gel Prime | `No` |\n| Full Conditioning | `Yes` (start of day) |\n| Gel Selection | `Gel 1` |\n| Perform Prerun | `5.0 kV` for `30 s` |\n| Rinse | Tray `3`, Row `A`, `# Dips: 2` |\n| Marker 1 | `No` |\n| Sample Injection | `5.0 kV` for `4 s` |\n| Separation | `8.0 kV` for `40.0 min` |\n| # of Capillaries | Per array configuration |\n\n**Note:** The DNF-473 method uses **shorter separation time (40 min)** and **higher separation voltage (8 kV)** compared to the HS Large Fragment method (DNF-464: 60 min, 5 kV), reflecting the smaller target size range.\n\n## 12. Run Procedure\n\n1. Load the sealed sample plate into the instrument.\n2. Confirm tray positions and liquid levels.\n3. In software, confirm the method parameters match Section 11.\n4. Start the run. Observe for the first 2\u20133 minutes for abnormal current, leaks, or errors.\n5. Allow the **40 min** separation to complete.\n\n## 13. Data Analysis (ProSize)\n\n1. Open the completed run in ProSize 3.0.\n2. Verify ladder sizing is correct (expected peaks at kit-specified positions).\n3. For each sample, review:\n   * **Electropherogram** \u2014 peak shape, baseline, and resolution\n   * **Total Concentration (ng/\u00b5L)** \u2014 integrated from all non-marker peaks\n   * **TIM (nmol/L)** \u2014 total integrated molarity\n   * **Main peak size (bp)** \u2014 dominant fragment size\n   * **Number of peaks** \u2014 indicator of library complexity/purity\n4. Export PDF report containing per-sample peak tables, electropherograms, and summary metrics.\n\n## 14. Interpretation Guide\n\n| Observation | Interpretation | Action |\n|---|---|---|\n| Single clean peak at expected size | Library prep and/or size selection successful | Proceed to pooling/sequencing |\n| Broad peak or multiple peaks | Heterogeneous library or incomplete size selection | Consider re-selection or accept depending on application |\n| No peaks but measurable concentration | Library below detection threshold for sizing | Verify by Qubit; may still be usable if concentration is sufficient |\n| Adapter dimer peak (~100-150 bp) | Incomplete cleanup | Re-clean with AMPure beads at appropriate ratio |\n| No signal | Failed library prep, sample degraded, or loading error | Troubleshoot: check sample, re-run, or re-prep |\n\n### Typical Results for ONT PCR-cDNA Libraries\n\n| Library state | Expected concentration | Expected main peak |\n|---|---|---|\n| Pre-size-selection | 4\u201310 ng/\u00b5L | 1,000\u20132,000 bp (broad) |\n| Post-bead-selection (1.5 kb) | 0.5\u20132 ng/\u00b5L | ~1,480 bp (single peak) |\n| Post-bead-selection (4 kb) | 0.5\u20132 ng/\u00b5L | ~3,500\u20134,500 bp (single peak) |\n\n## 15. Quality Control and Acceptance\n\n* Ladder wells exhibit expected profile and sizing.\n* Baseline is stable with distinct peaks where applicable.\n* Migration time consistent across capillaries.\n* If any criterion fails, document, recondition, and repeat controls before analysing unknowns.\n\n## 16. Troubleshooting\n\n| Problem | Action |\n|---|---|\n| Weak or absent signal | Verify injection settings, sample concentration, plate seal integrity, capillary tips in wells |\n| High noise or drifting baseline | Re-condition array, check buffer freshness and tray cleanliness |\n| Inconsistent sizing | Confirm ladder integrity, plate map accuracy, and temperature stability |\n| Frequent current faults | Inspect for bubbles, low liquid levels, or salt contamination; replace consumables |\n\n## 17. Maintenance\n\n* Perform **Full Conditioning** at the start of the day or as required by kit.\n* Replace gels and buffers per shelf-life and use counts.\n* Track **Array Usage Count** at each run and follow vendor guidance for replacement.\n* Clean trays weekly or after spills. Inspect electrodes and stage area.\n\n## 18. Records to Retain\n\nFor each run record:\n\n* Date, time, and operator\n* Device serial and FA software version\n* Array serial and usage count\n* Method name and key parameters\n* Plate map and sample IDs\n* File path to raw data and PDF reports\n* QC outcomes and any deviations\n\n---\n\n**End of SOP**"
                }
            ]
        },
        {
            "@id": "#protocol-35",
            "@type": "LabProtocol",
            "name": "Sequencing Submission",
            "description": "Submit samples for sequencing at the genomics facility. Links kevlab samples to QC app runs after sequencing is complete.",
            "version": "1.0",
            "category": "sequencing"
        },
        {
            "@id": "#measurement-344",
            "@type": "PropertyValue",
            "name": "bp",
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        },
        {
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            "@type": "PropertyValue",
            "name": "count",
            "value": "3",
            "unitCode": "UO:0000189",
            "unitText": "count"
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        {
            "@id": "#measurement-342",
            "@type": "PropertyValue",
            "name": "ng/\u00b5L",
            "value": "5.6008",
            "unitCode": "UO:0010050",
            "unitText": "ng/\u00b5L"
        },
        {
            "@id": "#measurement-343",
            "@type": "PropertyValue",
            "name": "nmol/L",
            "value": "6.1563",
            "unitCode": "UO:0000065",
            "unitText": "nmol/L"
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        {
            "@id": "#measurement-348",
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            "unitCode": "UO:0000244",
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            "@id": "#measurement-346",
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            "value": "6.2061",
            "unitCode": "UO:0010050",
            "unitText": "ng/\u00b5L"
        },
        {
            "@id": "#measurement-347",
            "@type": "PropertyValue",
            "name": "nmol/L",
            "value": "7.4416",
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        {
            "@id": "#measurement-350",
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        {
            "@id": "#measurement-351",
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            "unitCode": "UO:0000189",
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        },
        {
            "@id": "#measurement-354",
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            "@type": "PropertyValue",
            "name": "nmol/L",
            "value": "4.4695",
            "unitCode": "UO:0000065",
            "unitText": "nmol/L"
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        {
            "@id": "#measurement-360",
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        {
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        },
        {
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            "@type": "PropertyValue",
            "name": "nmol/L",
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        },
        {
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            "@type": "PropertyValue",
            "name": "bp",
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            "unitCode": "UO:0000244",
            "unitText": "bp"
        },
        {
            "@id": "#measurement-365",
            "@type": "PropertyValue",
            "name": "count",
            "value": "2",
            "unitCode": "UO:0000189",
            "unitText": "count"
        },
        {
            "@id": "#measurement-362",
            "@type": "PropertyValue",
            "name": "ng/\u00b5L",
            "value": "4.3327",
            "unitCode": "UO:0010050",
            "unitText": "ng/\u00b5L"
        },
        {
            "@id": "#measurement-363",
            "@type": "PropertyValue",
            "name": "nmol/L",
            "value": "4.7107",
            "unitCode": "UO:0000065",
            "unitText": "nmol/L"
        },
        {
            "@id": "#sample-433",
            "@type": "BioSample",
            "name": "1-C57-CORTEX",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
            "additionalProperty": [
                {
                    "@id": "#annotation-181"
                },
                {
                    "@id": "#annotation-180"
                }
            ],
            "isBasedOn": {
                "@id": "#sample-413"
            }
        },
        {
            "@id": "#sample-435",
            "@type": "BioSample",
            "name": "1-C57-LIVER",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
            "additionalProperty": [
                {
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                },
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            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-434",
            "@type": "BioSample",
            "name": "1-C57-PITUITARY",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
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                {
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                }
            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-397",
            "@type": "BioSample",
            "name": "1-D",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001051",
            "description": "C57 DNA",
            "organism": "Mus musculus",
            "materialType": "extract",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
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                {
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                {
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            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-421",
            "@type": "BioSample",
            "name": "1-DBA-CORTEX",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
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            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-423",
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            "name": "1-DBA-LIVER",
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            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
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        {
            "@id": "#sample-422",
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            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
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                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
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            ],
            "isBasedOn": {
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        },
        {
            "@id": "#sample-405",
            "@type": "BioSample",
            "name": "1-R",
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            "description": "C57 RNA",
            "organism": "Mus musculus",
            "materialType": "extract",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
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            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-404",
            "@type": "BioSample",
            "name": "10-D",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001051",
            "description": "DBA DNA",
            "organism": "Mus musculus",
            "materialType": "extract",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
            "additionalProperty": [
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            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-412",
            "@type": "BioSample",
            "name": "10-R",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0000895",
            "description": "DBA RNA",
            "organism": "Mus musculus",
            "materialType": "extract",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
            "additionalProperty": [
                {
                    "@id": "#annotation-262"
                },
                {
                    "@id": "#annotation-261"
                }
            ],
            "isBasedOn": {
                "@id": "#sample-430"
            }
        },
        {
            "@id": "#sample-436",
            "@type": "BioSample",
            "name": "2-C57-CORTEX",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
            "additionalProperty": [
                {
                    "@id": "#annotation-190"
                },
                {
                    "@id": "#annotation-189"
                }
            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-438",
            "@type": "BioSample",
            "name": "2-C57-LIVER",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
            "additionalProperty": [
                {
                    "@id": "#annotation-196"
                },
                {
                    "@id": "#annotation-195"
                }
            ],
            "isBasedOn": {
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            }
        },
        {
            "@id": "#sample-437",
            "@type": "BioSample",
            "name": "2-C57-PITUITARY",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0001479",
            "organism": "Mus musculus",
            "materialType": "source_material",
            "taxonomicRange": {
                "@id": "http://purl.obolibrary.org/obo/NCBITaxon_10090"
            },
            "additionalProperty": [
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                },
                {
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                }
            ],
            "isBasedOn": {
                "@id": "#sample-414"
            }
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                {
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                {
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                {
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                {
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                {
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                {
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                {
                    "@id": "#sample-421"
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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        {
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                "@id": "#protocol-37"
            },
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            "instrument": [
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                {
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            "startTime": "2023-03-14",
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                {
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                    "@id": "#sample-373"
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                {
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            ],
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
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                {
                    "@id": "#measurement-358"
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                {
                    "@id": "#measurement-359"
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                {
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                {
                    "@id": "#measurement-365"
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                {
                    "@id": "#measurement-362"
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                {
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            ]
        },
        {
            "@id": "#process-121",
            "@type": "CreateAction",
            "name": "PCR-cDNA barcoding library preparation for C57/DBA mouse RNA (run 3, bc10-15)",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0000711",
            "instrument": {
                "@id": "#protocol-37"
            },
            "startTime": "2023-05-09",
            "category": "sample_prep",
            "description": "Re-amplification of existing cDNA from original lib prep with new barcodes (bc10-15) for a third sequencing run. PCR from old cDNAs, not a fresh reverse transcription.",
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                    "@id": "#sample-370"
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                {
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                {
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                {
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                {
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            ],
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                {
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                {
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                {
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                {
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                {
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            ]
        },
        {
            "@id": "#process-95",
            "@type": "CreateAction",
            "name": "Nanopore PCR-cDNA sequencing of C57/DBA mouse RNA (run 3)",
            "additionalType": "http://purl.obolibrary.org/obo/OBI_0600047",
            "instrument": [
                {
                    "@id": "#protocol-35"
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                {
                    "@id": "#instrument-gridion"
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            "category": "sequencing",
            "description": "GridION PCR-cDNA sequencing of C57BL/6 and DBA/2 mouse RNA. Barcodes 10-12 (C57, group e), 13-15 (DBA, group f).",
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                    "@id": "#sample-453"
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                {
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                {
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                {
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}