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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 Innate Immune System and Class I MHC mediated antigen processing and presentation. Gene Ontology (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

GeneHancer (GH) Regulatory Elements for TRIM4 Gene

Promoters and enhancers for TRIM4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH07I099917 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 608.3 +0.4 387 2.6 PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B E2F8 ZNF207 TRIM4 LOC101927610 PIR52422 NYAP1 FAM200A GC07P099907
GH07I100672 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 119.4 -757.4 -757392 8.6 CLOCK MLX ZFP64 FEZF1 DMAP1 YY1 ZNF213 E2F8 ZNF143 ZNF548 GNB2 GC07P100676 TRIM4 ZNF3 GIGYF1 SRRT PCOLCE STAG3L5P PPP1R35 ENSG00000242798
GH07I100475 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 90.7 -558.2 -558155 4.4 HDGF PKNOX1 FOXA2 SMAD1 ARNT ZFP64 ARID4B SIN3A FEZF1 ZNF2 TSC22D4 ZSCAN25 SRRT TRIM4 ZNF655 GIGYF1 ZNF3 ENSG00000242798 STAG3L5P PILRA
GH07I100427 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 76.3 -513.6 -513599 10.8 CLOCK ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 PPP1R35 MEPCE PIR54054 ZCWPW1 ZSCAN25 TRIM4 SRRT GIGYF1 ZNF3 PILRA
GH07I100886 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 63.4 -969.7 -969728 5.2 HDGF PKNOX1 CLOCK SMAD1 ARNT ARID4B NEUROD1 SIN3A DMAP1 ZNF2 GC07M100887 UFSP1 TRIM4 SRRT ZNF3 GIGYF1 PPP1R35 STAG3L5P PCOLCE ACHE
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRIM4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRIM4 gene promoter:

Genomic Locations for TRIM4 Gene

Genomic Locations for TRIM4 Gene
chr7:99,876,958-99,919,600
(GRCh38/hg38)
Size:
42,643 bases
Orientation:
Minus strand
chr7:99,474,581-99,517,223
(GRCh37/hg19)

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: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

miRNA for TRIM4 Gene

miRTarBase miRNAs that target TRIM4

Clone Products

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
mitochondrion 1

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 IEA,IDA 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: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:

Clone Products

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

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 Variation AA Info Type
rs1000050800 -- 99,918,899(-) A/G intron_variant
rs1000142055 -- 99,906,120(-) C/T intron_variant
rs1000252278 -- 99,901,178(-) G/A intron_variant
rs1000372733 -- 99,918,002(-) T/C intron_variant
rs1000429951 -- 99,918,567(-) A/G intron_variant

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)

Additional Variant Information for TRIM4 Gene

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

SNP Genotyping and Copy Number Assay Products

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

Additional Disease Information for 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 58
  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 58
  3. 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 44 58
  4. Human metabolic individuality in biomedical and pharmaceutical research. (PMID: 21886157) Suhre K … Gieger C (Nature 2011) 3 44 58
  5. Unique features of TRIM5alpha among closely related human TRIM family members. (PMID: 17156811) Li X … Sodroski J (Virology 2007) 3 4 58

Products for TRIM4 Gene

Sources for TRIM4 Gene

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