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TRAT1 T cell receptor associated transmembrane adaptor 1 [ Homo sapiens (human) ]

Gene ID: 50852, updated on 27-Apr-2024

Summary

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Official Symbol
TRAT1provided by HGNC
Official Full Name
T cell receptor associated transmembrane adaptor 1provided by HGNC
Primary source
HGNC:HGNC:30698
See related
Ensembl:ENSG00000163519 MIM:604962; AllianceGenome:HGNC:30698
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TRIM; TCRIM; HSPC062; pp29/30
Summary
Predicted to enable transmembrane receptor protein tyrosine kinase adaptor activity. Acts upstream of or within negative regulation of receptor recycling; negative regulation of transport; and positive regulation of signal transduction. Located in centriolar satellite; mitotic spindle; and plasma membrane. Part of T cell receptor complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in lymph node (RPKM 11.9), appendix (RPKM 6.4) and 9 other tissues See more
Orthologs
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Genomic context

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Location:
3q13.13
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (108822786..108855005)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (111543021..111575233)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (108541633..108573852)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374034 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:108462949-108464148 Neighboring gene resistin like beta Neighboring gene guanylate cyclase activator 1C Neighboring gene MORC family CW-type zinc finger 1 Neighboring gene small nucleolar RNA U3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. The Roles and Mechanisms of TRAT1 in the Progression of Non-Small Cell Lung Cancer. Guo Q, et al. Curr Med Sci, 2022 Dec. PMID 36184729
  2. Targeting TRIM Proteins: A Quest towards Drugging an Emerging Protein Class. D'Amico F, et al. Chembiochem, 2021 Jun 15. PMID 33482040, Free PMC Article
  3. TRIM proteins as trim tabs for the homoeostasis. Horie-Inoue K. J Biochem, 2013 Oct. PMID 23969027
  4. Genomic organization and chromosomal localization of the human gene encoding the T-cell receptor-interacting molecule (TRIM). Hübener C, et al. Immunogenetics, 2000 Feb. PMID 10663578
  5. TRIM proteins in therapeutic membrane repair of muscular dystrophy. Alloush J, et al. JAMA Neurol, 2013 Jul. PMID 23699904, Free PMC Article

See all (23) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The Roles and Mechanisms of TRAT1 in the Progression of Non-Small Cell Lung Cancer.
    Title: The Roles and Mechanisms of TRAT1 in the Progression of Non-Small Cell Lung Cancer.
  2. TRIM acts to chaperone CTLA-4 transport to the cell surface; this function would be required to account for the phenotypic and functional properties of CD8(+) Tregs.
    Title: Human leukocyte antigen class I-restricted immunosuppression by human CD8+ regulatory T cells requires CTLA-4-mediated interaction with dendritic cells.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transmembrane receptor protein tyrosine kinase adaptor activity TAS
Traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in adaptive immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in cell surface receptor protein tyrosine kinase signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular defense response TAS
Traceable Author Statement
more info
 PubMed 
involved_in negative regulation of receptor recycling IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within negative regulation of receptor recycling IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within negative regulation of transport IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of T cell receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of T cell receptor signaling pathway IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within positive regulation of calcium-mediated signaling IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in signal transduction TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of T cell receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of T cell receptor complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in centriolar satellite IDA
Inferred from Direct Assay
more info
  
located_in mitotic spindle IDA
Inferred from Direct Assay
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
T-cell receptor-associated transmembrane adapter 1
Names
T cell receptor interacting molecule

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001317747.2 → NP_001304676.1  T-cell receptor-associated transmembrane adapter 1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AJ240085, AK291991, AV735609, BC025713
    Consensus CDS
    CCDS82814.1
    UniProtKB/TrEMBL
    C9JF66
    Related
    ENSP00000410097.1, ENST00000426646.1
    Conserved Domains (1) summary
    pfam15330
    Location:3 → 83
    SIT; SHP2-interacting transmembrane adaptor protein, SIT

  2. NM_016388.4 → NP_057472.2  T-cell receptor-associated transmembrane adapter 1 isoform 1

    See identical proteins and their annotated locations for NP_057472.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK291991, AV735609, BC025713
    Consensus CDS
    CCDS33813.1
    UniProtKB/Swiss-Prot
    Q6PIZ9, Q9NZX5
    Related
    ENSP00000295756.6, ENST00000295756.11
    Conserved Domains (1) summary
    pfam15330
    Location:23 → 120
    SIT; SHP2-interacting transmembrane adaptor protein, SIT

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    108822786..108855005
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    111543021..111575233
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6PIZ9.1 GenPept UniProtKB/Swiss-Prot:Q6PIZ9

Gene LinkOut

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Chemical Information
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