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Aliases for TRIM4 Gene

Aliases for TRIM4 Gene

  • Tripartite Motif Containing 4 2 3 5
  • RING-Type E3 Ubiquitin Transferase TRIM4 3 4
  • Tripartite Motif Protein 4 2 3
  • RING Finger Protein 87 3 4
  • RNF87 3 4
  • Tripartite Motif-Containing Protein 4 4
  • E3 Ubiquitin-Protein Ligase TRIM4 3
  • Tripartite Motif Protein TRIM4 2
  • Tripartite Motif-Containing 4 2
  • EC 2.3.2.27 4

External Ids for TRIM4 Gene

Previous GeneCards Identifiers for TRIM4 Gene

  • GC07M098022
  • GC07M099085
  • GC07M099099
  • GC07M099133
  • GC07M099134
  • GC07M099325
  • GC07M099474
  • GC07M094123

Summaries for TRIM4 Gene

Entrez Gene Summary for TRIM4 Gene

  • The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. The protein localizes to cytoplasmic bodies. Its function has not been identified. Alternatively spliced transcript variants that encode different isoforms have been described.[provided by RefSeq, Jul 2010]

GeneCards Summary for TRIM4 Gene

TRIM4 (Tripartite Motif Containing 4) is a Protein Coding gene. Among its related pathways are Class I MHC mediated antigen processing and presentation and Innate Immune System. GO annotations related to this gene include ligase activity. An important paralog of this gene is TRIM11.

UniProtKB/Swiss-Prot for TRIM4 Gene

  • E3 ubiquitin-protein ligase. Mediates Lys-63-linked polyubiquitination of the innate immune receptor DDX58, this linkage doesnt lead to proteasomal degradation but seems to enhance IFN induction.

Additional gene information for TRIM4 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM4 Gene

Genomics for TRIM4 Gene

Regulatory Elements for TRIM4 Gene

Enhancers for TRIM4 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
GH07H100672 1.4 ENCODE dbSUPER 119.4 -757.4 -757393 8 MLX ZFP64 FEZF1 DMAP1 YY1 ZNF143 ZNF548 SP3 ZC3H11A MEF2D TRIM4 ZNF3 GIGYF1 SRRT PCOLCE STAG3L5P PPP1R35 ENSG00000242798 AP4M1 ZAN
GH07H100475 1.4 ENCODE dbSUPER 101.2 -558.2 -558155 4 HDGF PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A FEZF1 ZNF2 ZBTB7B ZSCAN25 TRIM4 GIGYF1 ZNF3 ZNF655 SRRT AP4M1 ENSG00000242798 STAG3L5P PILRA
GH07H099579 1.4 FANTOM5 Ensembl ENCODE 95.2 +339.2 339200 1 ZNF2 ZBTB40 RAD21 ZNF366 ZNF354C ZNF202 ZNF680 ELF4 REST ZNF518A ZSCAN25 TRRAP TRIM4 LOC100131859 ZNF3 ZNF655 ENSG00000242798 STAG3L5P AP4M1 LOC101927550
GH07H100427 1.5 ENCODE dbSUPER 69.3 -513.6 -513600 10 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 SP3 NFYC ZC3H11A ZSCAN25 SRRT GIGYF1 TRIM4 AP4M1 PILRA LOC100131859 ZNF3 PPP1R35 ZSCAN21
GH07H099996 1.8 VISTA Ensembl ENCODE dbSUPER 55.6 -78.1 -78108 2 HDGF PKNOX1 FOXA2 MLX ARID4B DMAP1 YBX1 YY1 ETS1 SLC30A9 TRIM4 ZSCAN25 ZNF3 ZNF394 ZNF655 PCOLCE PTCD1 LOC100419643 SMURF1 SRRT
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRIM4 on UCSC Golden Path with GeneCards custom track

Promoters for TRIM4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000215714 200 2001 PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 ZNF207 MXD4

Genomic Location for TRIM4 Gene

Chromosome:
7
Start:
99,876,958 bp from pter
End:
99,919,600 bp from pter
Size:
42,643 bases
Orientation:
Minus strand

Genomic View for TRIM4 Gene

Genes around TRIM4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM4 Gene

Proteins for TRIM4 Gene

  • Protein details for TRIM4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9C037-TRIM4_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM4
    Protein Accession:
    Q9C037
    Secondary Accessions:
    • A4D298
    • Q75MK1
    • Q96F06
    • Q9C036

    Protein attributes for TRIM4 Gene

    Size:
    500 amino acids
    Molecular mass:
    57461 Da
    Quaternary structure:
    • Homotrimer.

    Alternative splice isoforms for TRIM4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM4 Gene

Post-translational modifications for TRIM4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRIM4 Gene

No data available for DME Specific Peptides for TRIM4 Gene

Domains & Families for TRIM4 Gene

Gene Families for TRIM4 Gene

Suggested Antigen Peptide Sequences for TRIM4 Gene

Graphical View of Domain Structure for InterPro Entry

Q9C037

UniProtKB/Swiss-Prot:

TRIM4_HUMAN :
  • Belongs to the TRIM/RBCC family.
Family:
  • Belongs to the TRIM/RBCC family.
genes like me logo Genes that share domains with TRIM4: view

Function for TRIM4 Gene

Molecular function for TRIM4 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-protein ligase. Mediates Lys-63-linked polyubiquitination of the innate immune receptor DDX58, this linkage doesnt lead to proteasomal degradation but seems to enhance IFN induction.

Enzyme Numbers (IUBMB) for TRIM4 Gene

Phenotypes From GWAS Catalog for TRIM4 Gene

Gene Ontology (GO) - Molecular Function for TRIM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity 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 TRIM4: view
genes like me logo Genes that share phenotypes with TRIM4: view

Animal Model Products

CRISPR Products

miRNA for TRIM4 Gene

miRTarBase miRNAs that target TRIM4

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for TRIM4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRIM4 Gene

Localization for TRIM4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM4 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 TRIM4 gene
Compartment Confidence
cytosol 5
plasma membrane 4
nucleus 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRIM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005737 cytoplasm IDA,IEA 17156811
GO:0005829 cytosol IDA --
GO:0005886 plasma membrane IDA --
genes like me logo Genes that share ontologies with TRIM4: view

Pathways & Interactions for TRIM4 Gene

genes like me logo Genes that share pathways with TRIM4: view

UniProtKB/Swiss-Prot Q9C037-TRIM4_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006914 autophagy IEA --
GO:0016567 protein ubiquitination IEA --
GO:0045087 innate immune response IEA --
GO:0070206 protein trimerization IDA 17156811
genes like me logo Genes that share ontologies with TRIM4: view

No data available for SIGNOR curated interactions for TRIM4 Gene

Drugs & Compounds for TRIM4 Gene

No Compound Related Data Available

Transcripts for TRIM4 Gene

Unigene Clusters for TRIM4 Gene

Tripartite motif containing 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for TRIM4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM4 Gene

No ASD Table

Relevant External Links for TRIM4 Gene

GeneLoc Exon Structure for
TRIM4
ECgene alternative splicing isoforms for
TRIM4

Expression for TRIM4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRIM4 Gene

Protein differential expression in normal tissues from HIPED for TRIM4 Gene

This gene is overexpressed in Breast (40.5) and Skin (7.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRIM4 Gene



Protein tissue co-expression partners for TRIM4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRIM4 Gene:

TRIM4

SOURCE GeneReport for Unigene cluster for TRIM4 Gene:

Hs.50749
genes like me logo Genes that share expression patterns with TRIM4: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM4 Gene

Orthologs for TRIM4 Gene

This gene was present in the common ancestor of mammals.

Orthologs for TRIM4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM4 33
  • 99.51 (n)
dog
(Canis familiaris)
Mammalia TRIM4 33 34
  • 85.3 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 36 (a)
ManyToMany
-- 34
  • 34 (a)
ManyToMany
-- 34
  • 34 (a)
ManyToMany
-- 34
  • 32 (a)
ManyToMany
-- 34
  • 29 (a)
ManyToMany
Species where no ortholog for TRIM4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TRIM4 Gene

ENSEMBL:
Gene Tree for TRIM4 (if available)
TreeFam:
Gene Tree for TRIM4 (if available)

Paralogs for TRIM4 Gene

(7) SIMAP similar genes for TRIM4 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with TRIM4: view

Variants for TRIM4 Gene

Sequence variations from dbSNP and Humsavar for TRIM4 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs1000050800 -- 99,918,899(+) TTTTC(A/G)TGCTT intron-variant, upstream-variant-2KB
rs1000142055 -- 99,906,120(+) AGCCT(C/T)GGCCA intron-variant
rs1000252278 -- 99,901,178(+) CCATT(A/G)CTCTG intron-variant
rs1000372733 -- 99,918,002(+) ACCCA(C/T)GAGAT intron-variant, upstream-variant-2KB
rs1000429951 -- 99,918,567(+) CTCAG(A/G)AAAAA intron-variant, upstream-variant-2KB

Variation tolerance for TRIM4 Gene

Residual Variation Intolerance Score: 49.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.94; 74.56% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRIM4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for TRIM4 Gene

Disorders for TRIM4 Gene

Relevant External Links for TRIM4

Genetic Association Database (GAD)
TRIM4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM4

No disorders were found for TRIM4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM4 Gene

Publications for TRIM4 Gene

  1. The tripartite motif family identifies cell compartments. (PMID: 11331580) Reymond A … Ballabio A (The EMBO journal 2001) 2 3 4 60
  2. TRIM4 modulates type I interferon induction and cellular antiviral response by targeting RIG-I for K63-linked ubiquitination. (PMID: 24755855) Yan J … Shu HB (Journal of molecular cell biology 2014) 3 4 60
  3. Human metabolic individuality in biomedical and pharmaceutical research. (PMID: 21886157) Suhre K … Gieger C (Nature 2011) 3 45 60
  4. Eight common genetic variants associated with serum DHEAS levels suggest a key role in ageing mechanisms. (PMID: 21533175) Zhai G … Wallaschofski H (PLoS genetics 2011) 3 45 60
  5. Unique features of TRIM5alpha among closely related human TRIM family members. (PMID: 17156811) Li X … Sodroski J (Virology 2007) 3 4 60

Products for TRIM4 Gene

Sources for TRIM4 Gene

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