Gm3604 (predicted gene 3604) - Rat Genome Database

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Gene: Gm3604 (predicted gene 3604) Mus musculus
Analyze
No known orthologs.
Symbol: Gm3604
Name: predicted gene 3604
RGD ID: 2302354
MGI Page MGI
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to several human genes including ZNF234 (zinc finger protein 234); ZNF254 (zinc finger protein 254); and ZNF28 (zinc finger protein 28).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 100041979; hypothetical protein LOC100041979; uncharacterized protein LOC100041979
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391362,514,534 - 62,561,441 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1362,516,142 - 62,530,991 (-)EnsemblGRCm39 Ensembl
GRCm381362,367,716 - 62,411,972 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1362,368,328 - 62,383,177 (-)EnsemblGRCm38mm10GRCm38
MGSCv371362,469,076 - 62,484,534 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361362,469,694 - 62,484,534 (-)NCBIMGSCv36mm8
Celera1364,047,104 - 64,063,879 (-)NCBICelera
Cytogenetic Map13B3NCBI
cM Map1332.74NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IBA)

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:18799693   PMID:21873635  


Genomics

Variants

.
Variants in Gm3604
827 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:100
Count of miRNA genes:94
Interacting mature miRNAs:95
Transcripts:ENSMUST00000107989, ENSMUST00000167516
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884393Humsd7_mhumerus midshaft diameter 7, 16 week (mouse)13395000076048119Mouse
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20477612112898424Mouse
4142009Pregq3_mpregnancy QTL 3 (mouse)Not determined132061551272385189Mouse
10755533Chol18_mcholesterol 18 (mouse)133096946764969467Mouse
10755517Chol15_mcholesterol 15 (mouse)133096946764969467Mouse
12738439Twq4_mtestis weight QTL 4 (mouse)133112911065129110Mouse
14696729Kidlq2_mkidney weight, left QTL 2 (mouse)133134473665344736Mouse
1301299Sluc23_msusceptibility to lung cancer 23 (mouse)Not determined133492194368922081Mouse
10412235Scgq5_mspontaneous crescentic glomerulonephritis QTL 5 (mouse)Not determined133606090896239162Mouse
1357587Pfat3_mpredicted fat percentage 3 (mouse)Not determined133610153070101640Mouse
1301734Acsns2_mAngiostrongylus costaricensis nematode susceptibility 2 (mouse)Not determined133610153070101640Mouse
1300561Heal7_mwound healing/regeneration 7 (mouse)Not determined133614482070144904Mouse
1300862Cfbw5_mcystic fibrosis body weight 5 (mouse)Not determined133872035872720517Mouse
1300985Bmd13_mbone mineral density 13 (mouse)Not determined133962924973629397Mouse
1302157Bwem2_mbody weight day 30 males 2 (mouse)Not determined133962924973629397Mouse
1301801Cpfd5_mcerebellum pattern fissures (mouse)Not determined133962924973629397Mouse
15039353Nmrs35_mNAFLD-associated magnetic resonance shift 35 (mouse)134058825374588253Mouse
1300668Pas10_mpulmonary adenoma susceptibility 10 (mouse)Not determined134148904275489158Mouse
4142331Bxs6_mBXSB/MpJ autoimmune nephritis 6 (mouse)Not determined4521044283744746Mouse
10412109Bxs7_mBXSB/MpJ autoimmune nephritis 7 (mouse)Not determined134521044283744746Mouse
26884396Humsd4_mhumerus midshaft diameter 4, 10 week (mouse)134785347673148119Mouse
4142372Moo2_mmodifier of Odc2 (mouse)Not determinedX5031841184318559Mouse
1301666Eae13_msusceptibility to experimental allergic encephalomyelitis 13 (mouse)Not determined135031841184318559Mouse
1300573Elsgp2_melevated serum gp70 2 (mouse)Not determined135061682884617027Mouse
14746975Manh74_mmandible shape 74 (mouse)135247726986477269Mouse
1302073Pgct1_mprimordial germ cell tumor locus 1 (mouse)Not determined135382078387820897Mouse
1357563Bmch6_mbone mechanical trait 6 (mouse)Not determined135538498089385140Mouse
4142314Tailaq3_mtail length adjusted QTL 3 (mouse)Not determined55720354112431103Mouse
4140959W10q17_mweight 10 weeks QTL 17 (mouse)Not determined55720354112431103Mouse
4141992W6q16_mweight 6 weeks QTL 16 (mouse)Not determined55720354112431103Mouse
4142241Tailq3_mtail length QTL 3 (mouse)Not determined55720354112431103Mouse
1558850Sgp3_mserum gp70 production 3 (mouse)Not determined135647045676971314Mouse
10402414Sgp5_mserum gp70 production 5 (mouse)Not determined1356470456105422186Mouse
1357553Cia28_mcollagen induced arthritis 28 (mouse)Not determined135662924996239162Mouse
10412163Wra1_mwheel running activity 1 (mouse)Not determined135913260093132738Mouse

Markers in Region
AU016916  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B3UniSTS
Whitehead/MRC_RH13640.63UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000107989   ⟹   ENSMUSP00000103623
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1362,516,677 - 62,519,750 (-)Ensembl
GRCm38.p6 Ensembl1362,368,863 - 62,371,936 (-)Ensembl
RefSeq Acc Id: ENSMUST00000187656   ⟹   ENSMUSP00000139845
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1362,516,142 - 62,530,991 (-)Ensembl
GRCm38.p6 Ensembl1362,368,328 - 62,383,177 (-)Ensembl
RefSeq Acc Id: ENSMUST00000202194   ⟹   ENSMUSP00000144048
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1362,517,629 - 62,530,965 (-)Ensembl
GRCm38.p6 Ensembl1362,369,815 - 62,383,151 (-)Ensembl
RefSeq Acc Id: NM_001162910   ⟹   NP_001156382
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,515,530 - 62,530,988 (-)NCBI
GRCm381362,367,716 - 62,383,174 (-)NCBI
MGSCv371362,469,076 - 62,484,534 (-)RGD
Celera1364,047,104 - 64,063,879 (-)RGD
cM Map13 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_011244438   ⟹   XP_011242740
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,514,534 - 62,535,371 (-)NCBI
GRCm381362,368,328 - 62,387,557 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011244440   ⟹   XP_011242742
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,514,534 - 62,559,784 (-)NCBI
GRCm381362,368,328 - 62,411,972 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011244441   ⟹   XP_011242743
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,514,534 - 62,535,371 (-)NCBI
GRCm381362,368,328 - 62,387,557 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036157792   ⟹   XP_036013685
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,514,534 - 62,561,441 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036157793   ⟹   XP_036013686
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,514,534 - 62,559,784 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036157794   ⟹   XP_036013687
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,514,534 - 62,535,371 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036157795   ⟹   XP_036013688
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391362,516,142 - 62,531,559 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001156382   ⟸   NM_001162910
- UniProtKB: A0A087WPN2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011242742   ⟸   XM_011244440
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_011242740   ⟸   XM_011244438
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_011242743   ⟸   XM_011244441
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSMUSP00000144048   ⟸   ENSMUST00000202194
RefSeq Acc Id: ENSMUSP00000103623   ⟸   ENSMUST00000107989
RefSeq Acc Id: ENSMUSP00000139845   ⟸   ENSMUST00000187656
RefSeq Acc Id: XP_036013685   ⟸   XM_036157792
- Peptide Label: isoform X2
RefSeq Acc Id: XP_036013686   ⟸   XM_036157793
- Peptide Label: isoform X2
RefSeq Acc Id: XP_036013687   ⟸   XM_036157794
- Peptide Label: isoform X3
RefSeq Acc Id: XP_036013688   ⟸   XM_036157795
- Peptide Label: isoform X4
- UniProtKB: A0A0J9YU77 (UniProtKB/TrEMBL),   A0A1Y7VJ92 (UniProtKB/TrEMBL)
Protein Domains
C2H2-type   KRAB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A087WPN2-F1-model_v2 AlphaFold A0A087WPN2 1-559 view protein structure

Promoters
RGD ID:8680606
Promoter ID:EPDNEW_M18334
Type:multiple initiation site
Name:Gm3604_1
Description:Mus musculus predicted gene 3604 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381362,383,190 - 62,383,250EPDNEW
RGD ID:6823970
Promoter ID:MM_KWN:14411
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:ES_Cell
Transcripts:ENSMUST00000102293,   NM_001162910
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361362,484,236 - 62,484,736 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3781781 AgrOrtholog
Ensembl Genes ENSMUSG00000094942 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000107989 ENTREZGENE
  ENSMUST00000107989.7 UniProtKB/TrEMBL
  ENSMUST00000187656 ENTREZGENE
  ENSMUST00000187656.7 UniProtKB/TrEMBL
  ENSMUST00000202194 ENTREZGENE
  ENSMUST00000202194.2 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.140 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro KRAB_dom_sf UniProtKB/TrEMBL
  Krueppel-associated_box UniProtKB/TrEMBL
  Sp4-like UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report mmu:100041979 UniProtKB/TrEMBL
MGD MGI:3781781 ENTREZGENE
NCBI Gene 100041979 ENTREZGENE
PANTHER GASTRULA ZINC FINGER PROTEIN XLCGF49.1-LIKE-RELATED UniProtKB/TrEMBL
  GENE 3055-RELATED UniProtKB/TrEMBL
  TRANSCRIPTIONAL REPRESSOR PROTEIN YY UniProtKB/TrEMBL
  ZINC FINGER PROTEIN UniProtKB/TrEMBL
Pfam KRAB UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
  zf-H2C2_2 UniProtKB/TrEMBL
PhenoGen Gm3604 PhenoGen
PROSITE KRAB UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART KRAB UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP Krueppel-associated_box UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A087WPN2 ENTREZGENE, UniProtKB/TrEMBL
  A0A0J9YU77 ENTREZGENE, UniProtKB/TrEMBL
  A0A1Y7VJ92 ENTREZGENE
  D3YUB7_MOUSE UniProtKB/TrEMBL
UniProt Secondary E9PZ83 UniProtKB/TrEMBL
  E9Q375 UniProtKB/TrEMBL
  E9QAC5 UniProtKB/TrEMBL
  F6SYQ3 UniProtKB/TrEMBL
  F6YL11 UniProtKB/TrEMBL
  F8VQA3 UniProtKB/TrEMBL
  G3UZJ1 UniProtKB/TrEMBL