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Aliases for TRAT1 Gene

Aliases for TRAT1 Gene

  • T Cell Receptor Associated Transmembrane Adaptor 1 2 3 5
  • T Cell Receptor Interacting Molecule 2 3
  • Pp29/30 3 4
  • TCRIM 3 4
  • TRIM 3 4
  • T-Cell Receptor-Associated Transmembrane Adapter 1 3
  • T-Cell Receptor-Interacting Molecule 4
  • HSPC062 3

External Ids for TRAT1 Gene

Previous HGNC Symbols for TRAT1 Gene

  • TCRIM

Previous GeneCards Identifiers for TRAT1 Gene

  • GC03P110026
  • GC03P108541
  • GC03P105915

Summaries for TRAT1 Gene

GeneCards Summary for TRAT1 Gene

TRAT1 (T Cell Receptor Associated Transmembrane Adaptor 1) is a Protein Coding gene. Among its related pathways are RET signaling and Immune response NFAT in immune response. GO annotations related to this gene include transmembrane receptor protein tyrosine kinase adaptor activity.

UniProtKB/Swiss-Prot for TRAT1 Gene

  • Stabilizes the TCR (T-cell antigen receptor)/CD3 complex at the surface of T-cells.

Gene Wiki entry for TRAT1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRAT1 Gene

Genomics for TRAT1 Gene

Regulatory Elements for TRAT1 Gene

Enhancers for TRAT1 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
GH03F108862 1 Ensembl ENCODE 11.4 +40.8 40770 1.7 JUND POLR2A USF2 FOS MAFK TRAT1 GC03P108894
GH03F108833 0.9 FANTOM5 Ensembl ENCODE 7.8 +11.9 11916 2.7 CTCF ZNF654 SMC3 ZNF384 RAD21 TRAT1 GC03P108894
GH03F108820 1.1 Ensembl ENCODE 0.8 -1.8 -1805 1.4 MNT RETNLB TRAT1
GH03F108821 0.4 ENCODE 0.8 +1.5 1452 5.0 ZNF146 CTBP1 FEZF1 DZIP3 RETNLB MYH15 TRAT1 GC03P108894
GH03F108818 0.4 ENCODE 0.8 -3.9 -3936 0.5 CTCF POLR2A SMC3 PRDM1 RAD21 RETNLB TRAT1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around TRAT1 on UCSC Golden Path with GeneCards custom track

Promoters for TRAT1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001677547 1702 3601 ZNF146

Genomic Location for TRAT1 Gene

Chromosome:
3
Start:
108,822,698 bp from pter
End:
108,855,005 bp from pter
Size:
32,308 bases
Orientation:
Plus strand

Genomic View for TRAT1 Gene

Genes around TRAT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAT1 Gene

Proteins for TRAT1 Gene

  • Protein details for TRAT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6PIZ9-TRAT1_HUMAN
    Recommended name:
    T-cell receptor-associated transmembrane adapter 1
    Protein Accession:
    Q6PIZ9
    Secondary Accessions:
    • Q9NZX5

    Protein attributes for TRAT1 Gene

    Size:
    186 amino acids
    Molecular mass:
    21211 Da
    Quaternary structure:
    • Homodimer; disulfide-linked. Interacts with CD3Z. When phosphorylated, interacts with PIK3R1.
    SequenceCaution:
    • Sequence=AAF29034.1; Type=Frameshift; Positions=166; Evidence={ECO:0000305};

neXtProt entry for TRAT1 Gene

Post-translational modifications for TRAT1 Gene

  • Phosphorylated on tyrosines by LCK or FYN upon TCR activation.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRAT1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Abcam antibodies for TRAT1

No data available for DME Specific Peptides for TRAT1 Gene

Domains & Families for TRAT1 Gene

Protein Domains for TRAT1 Gene

Suggested Antigen Peptide Sequences for TRAT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TRAT1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for TRAT1 Gene

Function for TRAT1 Gene

Molecular function for TRAT1 Gene

UniProtKB/Swiss-Prot Function:
Stabilizes the TCR (T-cell antigen receptor)/CD3 complex at the surface of T-cells.

Gene Ontology (GO) - Molecular Function for TRAT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005068 transmembrane receptor protein tyrosine kinase adaptor activity TAS 9687533
GO:0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity TAS --
genes like me logo Genes that share ontologies with TRAT1: view
genes like me logo Genes that share phenotypes with TRAT1: view

Animal Models for TRAT1 Gene

MGI Knock Outs for TRAT1:

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRAT1 Gene

Localization for TRAT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRAT1 Gene

Cell membrane; Single-pass type III membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRAT1 Gene COMPARTMENTS Subcellular localization image for TRAT1 gene
Compartment Confidence
plasma membrane 5
extracellular 3
cytoskeleton 2
endoplasmic reticulum 2
nucleus 2
cytosol 1
lysosome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for TRAT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS 9687533
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TRAT1: view

Pathways & Interactions for TRAT1 Gene

genes like me logo Genes that share pathways with TRAT1: view

Gene Ontology (GO) - Biological Process for TRAT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001920 negative regulation of receptor recycling IDA 11390434
GO:0002250 adaptive immune response IEA --
GO:0002376 immune system process IEA --
GO:0006968 cellular defense response TAS 9687533
GO:0007165 signal transduction TAS 9687533
genes like me logo Genes that share ontologies with TRAT1: view

No data available for SIGNOR curated interactions for TRAT1 Gene

Transcripts for TRAT1 Gene

Unigene Clusters for TRAT1 Gene

T cell receptor associated transmembrane adaptor 1:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRAT1 Gene

No ASD Table

Relevant External Links for TRAT1 Gene

GeneLoc Exon Structure for
TRAT1
ECgene alternative splicing isoforms for
TRAT1

Expression for TRAT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TRAT1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TRAT1 Gene

This gene is overexpressed in Whole Blood (x20.8), Spleen (x6.3), and Small Intestine - Terminal Ileum (x4.9).

Protein differential expression in normal tissues from HIPED for TRAT1 Gene

This gene is overexpressed in CD8 Tcells (30.3), CD4 Tcells (26.0), and Peripheral blood mononuclear cells (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRAT1 Gene



Protein tissue co-expression partners for TRAT1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRAT1 Gene:

TRAT1

SOURCE GeneReport for Unigene cluster for TRAT1 Gene:

Hs.138701

mRNA Expression by UniProt/SwissProt for TRAT1 Gene:

Q6PIZ9-TRAT1_HUMAN
Tissue specificity: Strongly expressed in thymus, and to a lesser extent in spleen, lymph node and peripheral blood lymphocytes. Present in T-cells and NK cells, but not B-cells (at protein level).
genes like me logo Genes that share expression patterns with TRAT1: view

Primer Products

Orthologs for TRAT1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRAT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRAT1 34 35
  • 99.28 (n)
dog
(Canis familiaris)
Mammalia TRAT1 34 35
  • 82.34 (n)
mouse
(Mus musculus)
Mammalia Trat1 34 16 35
  • 80.54 (n)
rat
(Rattus norvegicus)
Mammalia Trat1 34
  • 79.35 (n)
cow
(Bos Taurus)
Mammalia TRAT1 34 35
  • 79.17 (n)
oppossum
(Monodelphis domestica)
Mammalia TRAT1 35
  • 51 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRAT1 35
  • 49 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRAT1 34 35
  • 58.16 (n)
Species where no ortholog for TRAT1 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)
  • 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TRAT1 Gene

ENSEMBL:
Gene Tree for TRAT1 (if available)
TreeFam:
Gene Tree for TRAT1 (if available)

Paralogs for TRAT1 Gene

No data available for Paralogs for TRAT1 Gene

Variants for TRAT1 Gene

Sequence variations from dbSNP and Humsavar for TRAT1 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs10575104 -- 108,852,398(+) GCATG(-/CA)CACAC intron-variant
rs10575816 -- 108,838,319(+) AAAAG(-/TAGA)TAGAT intron-variant
rs10933965 -- 108,826,531(+) TGTGC(A/G)TGTAG intron-variant
rs111297620 -- 108,833,431(+) AAAAC(-/A)AAAAA intron-variant
rs111352680 -- 108,824,113(+) GATCC(A/G)CCCGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRAT1 Gene

Variant ID Type Subtype PubMed ID
dgv4834n100 CNV loss 25217958
dgv4835n100 CNV gain 25217958
esv3568956 CNV loss 25503493
esv3597329 CNV gain 21293372
esv3597330 CNV gain 21293372
esv3597331 CNV loss 21293372
nsv508236 CNV deletion 20534489
nsv521830 CNV loss 19592680
nsv522119 CNV gain 19592680
nsv829661 CNV gain 17160897
nsv829662 CNV gain 17160897

Variation tolerance for TRAT1 Gene

Residual Variation Intolerance Score: 82.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.80; 47.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRAT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRAT1 Gene

Disorders for TRAT1 Gene

Relevant External Links for TRAT1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRAT1

No disorders were found for TRAT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRAT1 Gene

Publications for TRAT1 Gene

  1. Genomic organization and chromosomal localization of the human gene encoding the T-cell receptor-interacting molecule (TRIM). (PMID: 10663578) HA1bener C. … Bruyns E. (Immunogenetics 2000) 2 3 22 64
  2. T cell receptor (TCR) interacting molecule (TRIM), a novel disulfide- linked dimer associated with the TCR-CD3-zeta complex, recruits intracellular signaling proteins to the plasma membrane. (PMID: 9687533) Bruyns E. … Schraven B. (J. Exp. Med. 1998) 2 3 4 64
  3. Transmembrane adaptor molecules: a new category of lymphoid-cell markers. (PMID: 16160011) Tedoldi S. … Horejsi V. (Blood 2006) 3 4 64
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. The transmembrane adaptor protein TRIM regulates T-cell receptor (TCR) expression and TCR-mediated signaling via an association with the TCR zeta chain. (PMID: 11390434) Kirchgessner H. … Schraven B. (J. Exp. Med. 2001) 3 4 64

Products for TRAT1 Gene

Sources for TRAT1 Gene

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