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Aliases for TRIM62 Gene

Aliases for TRIM62 Gene

  • Tripartite Motif Containing 62 2 3 5
  • Ductal Epithelium-Associated RING Chromosome 1 2 3
  • RING-Type E3 Ubiquitin Transferase TRIM62 3 4
  • Tripartite Motif-Containing Protein 62 3 4
  • E3 Ubiquitin-Protein Ligase TRIM62 3
  • Tripartite Motif-Containing 62 2
  • EC 2.3.2.27 4
  • DEAR1 3

External Ids for TRIM62 Gene

Previous GeneCards Identifiers for TRIM62 Gene

  • GC01M033281
  • GC01M033383
  • GC01M033611
  • GC01M031726

Summaries for TRIM62 Gene

GeneCards Summary for TRIM62 Gene

TRIM62 (Tripartite Motif Containing 62) is a Protein Coding gene. Diseases associated with TRIM62 include Ring Chromosome 1. Among its related pathways are Interferon gamma signaling and Innate Immune System. GO annotations related to this gene include ligase activity and ubiquitin-protein transferase activity. An important paralog of this gene is TRIM69.

UniProtKB/Swiss-Prot for TRIM62 Gene

  • E3 ubiquitin ligase whose activity is dependent on E2 ubiquitin-conjugating enzyme UBE2D2.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM62 Gene

Genomics for TRIM62 Gene

Regulatory Elements for TRIM62 Gene

Enhancers for TRIM62 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01G033219 1.5 FANTOM5 Ensembl ENCODE 22.2 -38.7 -38681 3.5 PKNOX1 FOXA2 ZSCAN4 RAD21 GATA2 RCOR1 FOS DEK EGR2 SMARCA5 TRIM62 ZNF362 KIAA1522 GC01P033228
GH01G033142 1.2 Ensembl ENCODE dbSUPER 24.3 +38.8 38751 2.4 KLF1 ATF1 CEBPB CEBPG GABPA GATA2 MYNN SCRT2 PRDM10 FOS TRIM62 AK2 AZIN2 ENSG00000278997 GC01M033142
GH01G033180 1.6 FANTOM5 ENCODE dbSUPER 15.3 +0.3 279 3.1 HDGF ZNF133 ARID4B SIN3A ZNF2 ZNF121 GLIS2 ZNF143 ZNF263 SP3 TRIM62 PHC2 HPCA GC01M033168
GH01G033336 2 FANTOM5 Ensembl ENCODE dbSUPER 12 -161.7 -161667 15.1 MLX CREB3L1 AGO1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 PHC2 A3GALT2 ENSG00000225313 TRIM62 RNF19B PIR53170 RN7SKP16
GH01G033152 1.2 Ensembl ENCODE dbSUPER 12.9 +28.7 28660 1.6 ZNF263 MAZ TEAD4 RBBP5 MNT EBF1 NR2F2 ETS1 ZNF664 POLR2A TRIM62 GC01M033142 ENSG00000279179
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRIM62 on UCSC Golden Path with GeneCards custom track

Promoters for TRIM62 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000004480 570 1801 HDGF ZNF133 ARID4B SIN3A ZNF2 ZNF121 GLIS2 ZNF143 ZNF263 SP3

Genomic Location for TRIM62 Gene

Chromosome:
1
Start:
33,145,399 bp from pter
End:
33,182,070 bp from pter
Size:
36,672 bases
Orientation:
Minus strand

Genomic View for TRIM62 Gene

Genes around TRIM62 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM62 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM62 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM62 Gene

Proteins for TRIM62 Gene

  • Protein details for TRIM62 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BVG3-TRI62_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM62
    Protein Accession:
    Q9BVG3
    Secondary Accessions:
    • B3KVH5
    • B4DTE4
    • D3DPR1
    • Q9NVG0

    Protein attributes for TRIM62 Gene

    Size:
    475 amino acids
    Molecular mass:
    54268 Da
    Quaternary structure:
    • Interacts with the ubiquitin-conjugating enzyme, UBE2D2.

    Alternative splice isoforms for TRIM62 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM62 Gene

Post-translational modifications for TRIM62 Gene

  • Polyubiquitinated, autoubiquitinated in the presence of UBE2D2.
  • Ubiquitination at isoforms=67
  • Modification sites at PhosphoSitePlus

Other Protein References for TRIM62 Gene

No data available for DME Specific Peptides for TRIM62 Gene

Domains & Families for TRIM62 Gene

Gene Families for TRIM62 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BVG3

UniProtKB/Swiss-Prot:

TRI62_HUMAN :
  • The RING finger is required for ubiquitin ligase activity.
  • Belongs to the TRIM/RBCC family.
Domain:
  • The RING finger is required for ubiquitin ligase activity.
Family:
  • Belongs to the TRIM/RBCC family.
genes like me logo Genes that share domains with TRIM62: view

Function for TRIM62 Gene

Molecular function for TRIM62 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
UniProtKB/Swiss-Prot Function:
E3 ubiquitin ligase whose activity is dependent on E2 ubiquitin-conjugating enzyme UBE2D2.

Enzyme Numbers (IUBMB) for TRIM62 Gene

Gene Ontology (GO) - Molecular Function for TRIM62 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity IDA 23402750
GO:0008270 zinc ion binding IEA --
GO:0016740 transferase activity IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with TRIM62: view
genes like me logo Genes that share phenotypes with TRIM62: view

Animal Models for TRIM62 Gene

MGI Knock Outs for TRIM62:

Animal Model Products

  • Taconic Biosciences Mouse Models for TRIM62

CRISPR Products

miRNA for TRIM62 Gene

miRTarBase miRNAs that target TRIM62

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRIM62 Gene

Localization for TRIM62 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM62 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRIM62 gene
Compartment Confidence
cytosol 5
nucleus 3

Gene Ontology (GO) - Cellular Components for TRIM62 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005737 cytoplasm IDA 23402750
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TRIM62: view

Pathways & Interactions for TRIM62 Gene

genes like me logo Genes that share pathways with TRIM62: view

Pathways by source for TRIM62 Gene

UniProtKB/Swiss-Prot Q9BVG3-TRI62_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM62 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010719 negative regulation of epithelial to mesenchymal transition IEA --
GO:0016567 protein ubiquitination IEA --
GO:0032897 negative regulation of viral transcription IDA 18248090
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling IDA 23077300
GO:0045087 innate immune response IMP 18248090
genes like me logo Genes that share ontologies with TRIM62: view

No data available for SIGNOR curated interactions for TRIM62 Gene

Drugs & Compounds for TRIM62 Gene

No Compound Related Data Available

Transcripts for TRIM62 Gene

Unigene Clusters for TRIM62 Gene

Tripartite motif containing 62:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM62 Gene

No ASD Table

Relevant External Links for TRIM62 Gene

GeneLoc Exon Structure for
TRIM62
ECgene alternative splicing isoforms for
TRIM62

Expression for TRIM62 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRIM62 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRIM62 Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TRIM62 Gene



Protein tissue co-expression partners for TRIM62 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRIM62 Gene:

TRIM62

SOURCE GeneReport for Unigene cluster for TRIM62 Gene:

Hs.656006

Evidence on tissue expression from TISSUES for TRIM62 Gene

  • Eye(4.1)
  • Nervous system(3.4)
genes like me logo Genes that share expression patterns with TRIM62: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM62 Gene

Orthologs for TRIM62 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRIM62 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM62 34 35
  • 99.09 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM62 35
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TRIM62 34 35
  • 92.56 (n)
rat
(Rattus norvegicus)
Mammalia Trim62 34
  • 91.37 (n)
mouse
(Mus musculus)
Mammalia Trim62 34 16 35
  • 90.95 (n)
dog
(Canis familiaris)
Mammalia TRIM62 35
  • 86 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TRIM62 35
  • 74 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRIM62 34 35
  • 85.54 (n)
lizard
(Anolis carolinensis)
Reptilia TRIM62 35
  • 84 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.13161 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.12886 34
zebrafish
(Danio rerio)
Actinopterygii TRIM62 (2 of 2) 35
  • 84 (a)
OneToMany
trim62 34 35
  • 75.09 (n)
Dr.27470 34
Species where no ortholog for TRIM62 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TRIM62 Gene

ENSEMBL:
Gene Tree for TRIM62 (if available)
TreeFam:
Gene Tree for TRIM62 (if available)

Paralogs for TRIM62 Gene

Paralogs for TRIM62 Gene

(10) SIMAP similar genes for TRIM62 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with TRIM62: view

Variants for TRIM62 Gene

Sequence variations from dbSNP and Humsavar for TRIM62 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000048917 -- 33,148,566(+) TTAGG(C/T)TTTCT intron-variant
rs1000082373 -- 33,162,597(+) AGAGT(C/T)TTGTC intron-variant, downstream-variant-500B
rs1000114862 -- 33,162,839(+) CAGGA(A/G)ACATC intron-variant, downstream-variant-500B
rs1000143709 -- 33,147,927(+) CTTCC(A/G)GATAT intron-variant
rs1000197274 -- 33,151,423(+) CACGA(A/T)TCATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRIM62 Gene

Variant ID Type Subtype PubMed ID
esv3585681 CNV loss 21293372
nsv950588 CNV deletion 24416366

Variation tolerance for TRIM62 Gene

Residual Variation Intolerance Score: 37.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.53; 55.64% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRIM62 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM62

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM62 Gene

Disorders for TRIM62 Gene

MalaCards: The human disease database

(1) MalaCards diseases for TRIM62 Gene - From: GeneCards

Disorder Aliases PubMed IDs
ring chromosome 1
  • chromosome 1 ring
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for TRIM62

Genetic Association Database (GAD)
TRIM62
Human Genome Epidemiology (HuGE) Navigator
TRIM62
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM62
genes like me logo Genes that share disorders with TRIM62: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRIM62 Gene

Publications for TRIM62 Gene

  1. Characterization of TRIM62 as a RING finger E3 ubiquitin ligase and its subcellular localization. (PMID: 23402750) Huang F. … Yang R.G. (Biochem. Biophys. Res. Commun. 2013) 3 4 64
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  3. DEAR1 is a dominant regulator of acinar morphogenesis and an independent predictor of local recurrence-free survival in early-onset breast cancer. (PMID: 19536326) Lott S.T. … Killary A.M. (PLoS Med. 2009) 2 3 64
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 64
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64

Products for TRIM62 Gene

Sources for TRIM62 Gene

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