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 4
  • 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 and Ring Chromosome. Among its related pathways are Innate Immune System and Interferon gamma signaling. Gene Ontology (GO) annotations related to this gene include ligase activity and ubiquitin-protein transferase activity. An important paralog of this gene is TRIM39.

UniProtKB/Swiss-Prot Summary for TRIM62 Gene

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

Additional gene information for TRIM62 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TRIM62 Gene

Genomics for TRIM62 Gene

GeneHancer (GH) Regulatory Elements for TRIM62 Gene

Promoters and enhancers for TRIM62 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TRIM62 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TRIM62

Top Transcription factor binding sites by QIAGEN in the TRIM62 gene promoter:
  • AhR
  • AP-4
  • c-Myc
  • C/EBPalpha
  • E47
  • GATA-3
  • Max1
  • USF-1
  • USF1
  • YY1

Genomic Locations for TRIM62 Gene

Genomic Locations for TRIM62 Gene
chr1:33,145,399-33,182,070
(GRCh38/hg38)
Size:
36,672 bases
Orientation:
Minus strand
chr1:33,611,003-33,647,671
(GRCh37/hg19)
Size:
36,669 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 Lys67
  • 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

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for TRIM62 Gene

Blocks:
  • Zn-finger, RING
  • B-box zinc finger signature
  • Butyrophylin C-terminal DUF signature
  • SPRY-associated domain
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TRIM62 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ51302, highly similar to Mus musculus tripartite motif-containing 62 (Trim62), mRNA (B4DTE4_HUMAN)
  • Tripartite motif-containing protein 62 (TRI62_HUMAN)

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 Function:
E3 ubiquitin ligase whose activity is dependent on E2 ubiquitin-conjugating enzyme UBE2D2.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=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.; EC=2.3.2.27;.

Enzyme Numbers (IUBMB) for TRIM62 Gene

Phenotypes From GWAS Catalog 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:0005515 protein binding IEA --
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

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TRIM62

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 4
nucleus 3
plasma membrane 1
extracellular 1
cytoskeleton 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Focal adhesion sites (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRIM62 Gene

GO ID Qualified GO term Evidence PubMed IDs
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

mRNA/cDNA for TRIM62 Gene

2 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TRIM62

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

No ASD Table

Relevant External Links for TRIM62 Gene

GeneLoc Exon Structure for
TRIM62

Expression for TRIM62 Gene

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



Protein tissue co-expression partners for TRIM62 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for 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

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 31 30
  • 99.09 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM62 31
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TRIM62 31 30
  • 92.56 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trim62 30
  • 91.37 (n)
mouse
(Mus musculus)
Mammalia Trim62 17 31 30
  • 90.95 (n)
dog
(Canis familiaris)
Mammalia TRIM62 31
  • 86 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TRIM62 31
  • 74 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRIM62 31 30
  • 85.54 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRIM62 31
  • 84 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.12886 30
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.13161 30
zebrafish
(Danio rerio)
Actinopterygii TRIM62 (2 of 2) 31
  • 84 (a)
OneToMany
trim62 31 30
  • 75.09 (n)
OneToMany
Dr.27470 30
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)
Aminode:
Evolutionary constrained regions (ECRs) for TRIM62: view image

Paralogs for TRIM62 Gene

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

  • TRI62_HUMAN
  • B4DTE4_HUMAN
genes like me logo Genes that share paralogs with TRIM62: view

Variants for TRIM62 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TRIM62 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
727193 Likely Benign: not provided 33,147,603(-) G/A SYNONYMOUS_VARIANT
727194 Likely Benign: not provided 33,159,816(-) G/A SYNONYMOUS_VARIANT
741382 Likely Benign: not provided 33,159,926(-) G/T SYNONYMOUS_VARIANT
746594 Likely Benign: not provided 33,159,828(-) C/T SYNONYMOUS_VARIANT
775532 Benign: not provided 33,147,188(-) C/T MISSENSE_VARIANT

Additional dbSNP identifiers (rs#s) for TRIM62 Gene

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)

Additional Variant Information 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

(4) MalaCards diseases for TRIM62 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
ring chromosome 1
  • chromosome 1 ring
ring chromosome
cataract 31, multiple types
  • ctrct31
opitz-gbbb syndrome
  • hypertelorism with esophageal abnormality and hypospadias
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for TRIM62

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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 RG (Biochemical and biophysical research communications 2013) 3 4 54
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41 54
  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 ST … Killary AM (PLoS medicine 2009) 2 3 54
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 54
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54

Products for TRIM62 Gene

Sources for TRIM62 Gene