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Aliases for TRIM3 Gene

Aliases for TRIM3 Gene

  • Tripartite Motif Containing 3 2 3 5
  • Ring Finger Protein 22 2 3 4
  • Brain-Expressed RING Finger Protein 3 4
  • Tripartite Motif Protein TRIM3 2 3
  • Brain Expressed Ring Finger 2 3
  • RING Finger Protein 97 3 4
  • RNF22 3 4
  • RNF97 3 4
  • BERP 3 4
  • Tripartite Motif-Containing Protein 3 3
  • Tripartite Motif-Containing 3 2
  • HAC1 3

External Ids for TRIM3 Gene

Previous HGNC Symbols for TRIM3 Gene

  • RNF22

Previous GeneCards Identifiers for TRIM3 Gene

  • GC11M007213
  • GC11M006930
  • GC11M006428
  • GC11M006434
  • GC11M006426
  • GC11M006128

Summaries for TRIM3 Gene

Entrez Gene Summary for TRIM3 Gene

  • The protein encoded by this gene is a member of the tripartite motif (TRIM) family, also called the 'RING-B-box-coiled-coil' (RBCC) subgroup of RING finger proteins. 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. This protein localizes to cytoplasmic filaments. It is similar to a rat protein which is a specific partner for the tail domain of myosin V, a class of myosins which are involved in the targeted transport of organelles. The rat protein can also interact with alpha-actinin-4. Thus it is suggested that this human protein may play a role in myosin V-mediated cargo transport. Alternatively spliced transcript variants encoding the same isoform have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for TRIM3 Gene

TRIM3 (Tripartite Motif Containing 3) is a Protein Coding gene. Among its related pathways are Cytokine Signaling in Immune system and Innate Immune System. Gene Ontology (GO) annotations related to this gene include ubiquitin-protein transferase activity and protein C-terminus binding. An important paralog of this gene is TRIM2.

UniProtKB/Swiss-Prot for TRIM3 Gene

  • Probably involved in vesicular trafficking via its association with the CART complex (PubMed:15772161). The CART complex is necessary for efficient transferrin receptor recycling but not for EGFR degradation (PubMed:15772161). Positively regulates motility of microtubule-dependent motor protein KIF21B (By similarity).

Gene Wiki entry for TRIM3 Gene

Additional gene information for TRIM3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM3 Gene

Genomics for TRIM3 Gene

GeneHancer (GH) Regulatory Elements for TRIM3 Gene

Promoters and enhancers for TRIM3 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
GH11I006473 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 561.8 -0.9 -877 4.6 HDAC1 FOXA2 RB1 KLF17 SIN3A ZBTB40 RAD21 ZNF335 POLR2B GLIS2 TRIM3 GC11P006473 APBB1 SMPD1 TIMM10B ARFIP2
GH11I006465 Promoter 0.5 EPDnew 561.4 +8.7 8728 0.1 TRIM3 GC11M006470 GC11P006457
GH11I006654 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE 2.1 -181.3 -181300 3 HDAC1 FOXA2 MLX SIN3A ZNF48 RARA ZNF366 EGR2 HMG20B SP5 DCHS1 RRP8 FAM160A2 ENSG00000254641 LOC100506258 LOC644169 ILK APBB1 OR2D2 TRIM3
GH11I006258 Promoter/Enhancer 1.6 EPDnew FANTOM5 Ensembl ENCODE 2.7 +214.6 214626 2.2 CTCF MXI1 ZBTB6 SUZ12 CHD7 ZNF335 ZFHX2 POLR2A ZNF366 PRDM10 CCKBR APBB1 CNGA4 TRIM3 DCHS1 GC11M006274
GH11I006479 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 0.4 -7.0 -6973 3.6 HDGF PKNOX1 SMAD1 MLX ARID4B SIN3A DMAP1 YY1 POLR2B E2F8 TIMM10B ENSG00000283977 ARFIP2 FAM160A2 APBB1 SMPD1 TRIM34 GC11P006473 TRIM3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRIM3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRIM3 gene promoter:

Genomic Locations for TRIM3 Gene

Genomic Locations for TRIM3 Gene
chr11:6,448,613-6,474,459
(GRCh38/hg38)
Size:
25,847 bases
Orientation:
Minus strand
chr11:6,469,843-6,495,689
(GRCh37/hg19)

Genomic View for TRIM3 Gene

Genes around TRIM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM3 Gene

Proteins for TRIM3 Gene

  • Protein details for TRIM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75382-TRIM3_HUMAN
    Recommended name:
    Tripartite motif-containing protein 3
    Protein Accession:
    O75382
    Secondary Accessions:
    • B7Z5E6
    • F5H2Q8
    • Q4V9L4
    • Q9C038
    • Q9C039

    Protein attributes for TRIM3 Gene

    Size:
    744 amino acids
    Molecular mass:
    80830 Da
    Quaternary structure:
    • Associates with myosin-Vb (MYO5B) and alpha-actinin-4 (ACTN4) (By similarity). Component of the CART complex, at least composed of ACTN4, HGS/HRS, MYO5B and TRIM3 (PubMed:15772161). Interacts with ZFYVE28/LST2 (PubMed:19460345). Interacts with KIF21B (By similarity).

    Alternative splice isoforms for TRIM3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM3 Gene

Post-translational modifications for TRIM3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for TRIM3 Gene

Domains & Families for TRIM3 Gene

Gene Families for TRIM3 Gene

Graphical View of Domain Structure for InterPro Entry

O75382

UniProtKB/Swiss-Prot:

TRIM3_HUMAN :
  • The interaction with MYO5B is dependent upon its NHL repeats, which form a beta-propeller (NHL) domain containing six blades.
  • Belongs to the TRIM/RBCC family.
Domain:
  • The interaction with MYO5B is dependent upon its NHL repeats, which form a beta-propeller (NHL) domain containing six blades.
Family:
  • Belongs to the TRIM/RBCC family.
genes like me logo Genes that share domains with TRIM3: view

Function for TRIM3 Gene

Molecular function for TRIM3 Gene

UniProtKB/Swiss-Prot Function:
Probably involved in vesicular trafficking via its association with the CART complex (PubMed:15772161). The CART complex is necessary for efficient transferrin receptor recycling but not for EGFR degradation (PubMed:15772161). Positively regulates motility of microtubule-dependent motor protein KIF21B (By similarity).

Gene Ontology (GO) - Molecular Function for TRIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 19460345
GO:0008022 protein C-terminus binding TAS 10391919
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
GO:0061630 ubiquitin protein ligase activity IEA --
genes like me logo Genes that share ontologies with TRIM3: view
genes like me logo Genes that share phenotypes with TRIM3: view

Animal Models for TRIM3 Gene

MGI Knock Outs for TRIM3:

Animal Model Products

CRISPR Products

miRNA for TRIM3 Gene

miRTarBase miRNAs that target TRIM3

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRIM3 Gene

Localization for TRIM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM3 Gene

Cytoplasm. Early endosome. Golgi apparatus, trans-Golgi network. Cell projection, dendrite.

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 TRIM3 gene
Compartment Confidence
nucleus 4
mitochondrion 3
golgi apparatus 3
endosome 3
endoplasmic reticulum 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for TRIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005737 cytoplasm TAS 10391919
GO:0005768 endosome IEA --
GO:0005769 early endosome IEA --
GO:0005794 Golgi apparatus IEA --
genes like me logo Genes that share ontologies with TRIM3: view

Pathways & Interactions for TRIM3 Gene

genes like me logo Genes that share pathways with TRIM3: view

Pathways by source for TRIM3 Gene

Gene Ontology (GO) - Biological Process for TRIM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0007399 nervous system development TAS 10391919
GO:0015031 protein transport IEA --
GO:0016567 protein ubiquitination IEA --
genes like me logo Genes that share ontologies with TRIM3: view

No data available for SIGNOR curated interactions for TRIM3 Gene

Drugs & Compounds for TRIM3 Gene

No Compound Related Data Available

Transcripts for TRIM3 Gene

Unigene Clusters for TRIM3 Gene

Tripartite motif containing 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM3 Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3a · 3b ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c ^ 9 ^ 10a · 10b ^ 11a · 11b · 11c ^ 12 ^ 13 ^ 14a ·
SP1: - - - - - - - -
SP2:
SP3: - - - -
SP4: - -
SP5: - - - - -
SP6:
SP7: - - - - -
SP8: - - - - - - -
SP9: - - -
SP10:
SP11: -
SP12:
SP13:

ExUns: 14b ^ 15a · 15b ^ 16
SP1: - -
SP2: - -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:

Relevant External Links for TRIM3 Gene

GeneLoc Exon Structure for
TRIM3
ECgene alternative splicing isoforms for
TRIM3

Expression for TRIM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRIM3 Gene

mRNA differential expression in normal tissues according to GTEx for TRIM3 Gene

This gene is overexpressed in Brain - Cerebellum (x4.7) and Brain - Cerebellar Hemisphere (x4.6).

Protein differential expression in normal tissues from HIPED for TRIM3 Gene

This gene is overexpressed in Fetal Brain (20.5), Lung (14.6), and Spinal cord (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRIM3 Gene



Protein tissue co-expression partners for TRIM3 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRIM3 Gene:

TRIM3

SOURCE GeneReport for Unigene cluster for TRIM3 Gene:

Hs.591992

mRNA Expression by UniProt/SwissProt for TRIM3 Gene:

O75382-TRIM3_HUMAN
Tissue specificity: Expressed in brain, heart, uterus and testis.

Evidence on tissue expression from TISSUES for TRIM3 Gene

  • Nervous system(4.9)
genes like me logo Genes that share expression patterns with TRIM3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM3 Gene

Orthologs for TRIM3 Gene

This gene was present in the common ancestor of animals.

Orthologs for TRIM3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM3 33 34
  • 99.87 (n)
cow
(Bos Taurus)
Mammalia TRIM3 33 34
  • 93.06 (n)
dog
(Canis familiaris)
Mammalia TRIM3 33 34
  • 92.65 (n)
oppossum
(Monodelphis domestica)
Mammalia TRIM3 34
  • 91 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Trim3 33
  • 90.59 (n)
mouse
(Mus musculus)
Mammalia Trim3 33 16 34
  • 90.41 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM3 34
  • 85 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRIM3 33 34
  • 76.02 (n)
lizard
(Anolis carolinensis)
Reptilia TRIM3 34
  • 82 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii trim3a 34
  • 72 (a)
OneToMany
trim3b 33 34
  • 70.17 (n)
fruit fly
(Drosophila melanogaster)
Insecta brat 35 34
  • 36 (a)
worm
(Caenorhabditis elegans)
Secernentea ncl-1 35 34
  • 36 (a)
nhl-3 34
  • 23 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 23 (a)
OneToMany
Species where no ortholog for TRIM3 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)
  • 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)
  • 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 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)

Evolution for TRIM3 Gene

ENSEMBL:
Gene Tree for TRIM3 (if available)
TreeFam:
Gene Tree for TRIM3 (if available)

Paralogs for TRIM3 Gene

Paralogs for TRIM3 Gene

genes like me logo Genes that share paralogs with TRIM3: view

Variants for TRIM3 Gene

Sequence variations from dbSNP and Humsavar for TRIM3 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000103128 -- 6,462,882(-) C/T intron_variant
rs1000505477 -- 6,469,264(-) G/A intron_variant
rs1000531970 -- 6,458,405(-) A/G intron_variant
rs1000665479 -- 6,467,277(-) G/A intron_variant
rs1000736697 -- 6,450,499(-) G/A intron_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for TRIM3 Gene

Variant ID Type Subtype PubMed ID
esv3382906 CNV duplication 20981092
esv3579328 CNV loss 25503493
esv3625266 CNV gain 21293372

Variation tolerance for TRIM3 Gene

Residual Variation Intolerance Score: 7.67% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.27; 25.36% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRIM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM3 Gene

Disorders for TRIM3 Gene

Additional Disease Information for TRIM3

No disorders were found for TRIM3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM3 Gene

Publications for TRIM3 Gene

  1. CART: an Hrs/actinin-4/BERP/myosin V protein complex required for efficient receptor recycling. (PMID: 15772161) Yan Q … Bean AJ (Molecular biology of the cell 2005) 3 4 22 58
  2. Cloning and characterization of a gene (RNF22) encoding a novel brain expressed ring finger protein (BERP) that maps to human chromosome 11p15.5. (PMID: 11170753) El-Husseini AE … Vincent SR (Genomics 2001) 3 4 22 58
  3. Loss of heterozygosity of TRIM3 in malignant gliomas. (PMID: 19250537) Boulay JL … Hirth F (BMC cancer 2009) 3 22 58
  4. Monoubiquitinylation regulates endosomal localization of Lst2, a negative regulator of EGF receptor signaling. (PMID: 19460345) Mosesson Y … Yarden Y (Developmental cell 2009) 3 4 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for TRIM3 Gene

Sources for TRIM3 Gene

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