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

    Gene ID: 50852, updated on 2-Nov-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, Nov 2024]
    Expression
    Biased expression in lymph node (RPKM 11.9), appendix (RPKM 6.4) and 9 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See TRAT1 in Genome Data Viewer
    Location:
    3q13.13
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (108822786..108855005)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (111543021..111575233)
    RS_2024_09 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 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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    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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    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)

    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
    		  
    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_2024_08

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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