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    TRA T cell receptor alpha locus [ Homo sapiens (human) ]

    Gene ID: 6955, updated on 13-Jun-2013
    Official Symbol
    TRAprovided by HGNC
    Official Full Name
    T cell receptor alpha locusprovided by HGNC
    Primary source
    HGNC:12027
    See related
    MIM:186880
    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
    TCRA; TCRD; TRA@
    Location :
    14q11.2
    Sequence :
    Chromosome: 14; NC_000014.8 (22090057..23021075)
    See TRA in Epigenomics, MapViewer

    Chromosome 14 - NC_000014.8Genomic Context describing neighboring genes Neighboring gene olfactory receptor, family 10, subfamily G, member 1 pseudogene Neighboring gene ubiquitin-conjugating enzyme E2N pseudogene 1 Neighboring gene ADP-ribosylation factor-like 6 interacting protein 1 pseudogene 1 Neighboring gene T cell receptor alpha variable 1-1 Neighboring gene T cell receptor alpha variable 1-2 Neighboring gene olfactory receptor, family 10, subfamily G, member 2 Neighboring gene olfactory receptor, family 4, subfamily E, member 2 Neighboring gene olfactory receptor, family 4, subfamily E, member 1 (gene/pseudogene) Neighboring gene T cell receptor alpha variable 2 Neighboring gene T cell receptor alpha variable 3 (gene/pseudogene) Neighboring gene T cell receptor alpha variable 4 Neighboring gene ribosomal protein L4 pseudogene 1 Neighboring gene T cell receptor alpha variable 5 Neighboring gene T cell receptor alpha variable 6 Neighboring gene T cell receptor alpha variable 8-1 Neighboring gene T cell receptor alpha variable 9-1 Neighboring gene T cell receptor alpha variable 7 Neighboring gene T cell receptor alpha variable 12-1 Neighboring gene T cell receptor alpha variable 10 Neighboring gene T cell receptor alpha variable 11 (pseudogene) Neighboring gene T cell receptor alpha variable 8-2 Neighboring gene T cell receptor alpha variable 8-3 Neighboring gene T cell receptor alpha variable 13-1 Neighboring gene T cell receptor alpha variable 12-2 Neighboring gene T cell receptor alpha variable 8-4 Neighboring gene T cell receptor alpha variable 14/delta variable 4 Neighboring gene T cell receptor alpha variable 13-2 Neighboring gene T cell receptor alpha variable 8-5 (pseudogene) Neighboring gene T cell receptor alpha variable 9-2 Neighboring gene sal-like 4 (Drosophila) pseudogene Neighboring gene T cell receptor alpha variable 12-3 Neighboring gene T cell receptor alpha variable 15 (pseudogene) Neighboring gene T cell receptor alpha variable 8-6 Neighboring gene T cell receptor alpha variable 16 Neighboring gene T cell receptor alpha variable 17 Neighboring gene T cell receptor alpha variable 18 Neighboring gene T cell receptor alpha variable 19 Neighboring gene T cell receptor alpha variable 20 Neighboring gene T cell receptor alpha variable 23/delta variable 6 Neighboring gene T cell receptor alpha variable 21 Neighboring gene T cell receptor alpha variable 22 Neighboring gene T cell receptor alpha variable 26-1 Neighboring gene T cell receptor alpha variable 24 Neighboring gene T cell receptor delta variable 1 Neighboring gene T cell receptor alpha variable 25 Neighboring gene T cell receptor alpha variable 8-7 (non-functional) Neighboring gene T cell receptor alpha variable 29/delta variable 5 (gene/pseudogene) Neighboring gene T cell receptor alpha variable 27 Neighboring gene T cell receptor alpha variable 28 (pseudogene) Neighboring gene T cell receptor alpha variable 30 Neighboring gene T cell receptor alpha variable 26-2 Neighboring gene T cell receptor alpha variable 31 (pseudogene) Neighboring gene T cell receptor alpha variable 36/delta variable 7 Neighboring gene T cell receptor alpha variable 32 (pseudogene) Neighboring gene T cell receptor alpha variable 33 (pseudogene) Neighboring gene T cell receptor alpha variable 34 Neighboring gene T cell receptor alpha variable 38-2/delta variable 8 Neighboring gene T cell receptor alpha variable 35 Neighboring gene T cell receptor alpha variable 38-1 Neighboring gene translin-associated factor X pseudogene Neighboring gene T cell receptor alpha variable 37 (pseudogene) Neighboring gene T cell receptor alpha variable 39 Neighboring gene T cell receptor alpha variable 40 Neighboring gene T cell receptor alpha variable 41 Neighboring gene T cell receptor delta variable 2 Neighboring gene T cell receptor delta diversity 1 Neighboring gene T cell receptor delta diversity 2 Neighboring gene T cell receptor delta joining 1 Neighboring gene T cell receptor delta diversity 3 Neighboring gene T cell receptor delta locus Neighboring gene T cell receptor delta joining 4 Neighboring gene T cell receptor delta joining 2 Neighboring gene T cell receptor delta joining 3 Neighboring gene T cell receptor alpha joining 61 (non-functional) Neighboring gene T cell receptor alpha joining 58 (non-functional) Neighboring gene T cell receptor alpha joining 59 (non-functional) Neighboring gene T cell receptor alpha joining 60 (pseudogene) Neighboring gene T cell receptor alpha joining 57 Neighboring gene T cell receptor alpha joining 56 Neighboring gene T cell receptor delta variable 3 Neighboring gene T cell receptor alpha joining 55 (pseudogene) Neighboring gene T cell receptor alpha joining 54 Neighboring gene T cell receptor alpha joining 53 Neighboring gene T cell receptor alpha joining 52 Neighboring gene T cell receptor alpha joining 49 Neighboring gene T cell receptor alpha joining 50 Neighboring gene T cell receptor alpha joining 51 (pseudogene) Neighboring gene T cell receptor delta constant Neighboring gene T cell receptor alpha joining 48 Neighboring gene T cell receptor alpha joining 47 Neighboring gene T cell receptor alpha joining 46 Neighboring gene T cell receptor alpha joining 45 Neighboring gene T cell receptor alpha joining 44 Neighboring gene T cell receptor alpha joining 41 Neighboring gene T cell receptor alpha joining 42 Neighboring gene T cell receptor alpha joining 43 Neighboring gene T cell receptor alpha joining 40 Neighboring gene T cell receptor alpha joining 39 Neighboring gene T cell receptor alpha joining 38 Neighboring gene T cell receptor alpha joining 37 Neighboring gene T cell receptor alpha joining 36 Neighboring gene T cell receptor alpha joining 32 Neighboring gene T cell receptor alpha joining 33 Neighboring gene T cell receptor alpha joining 34 Neighboring gene T cell receptor alpha joining 35 (non-functional) Neighboring gene T cell receptor alpha joining 31 Neighboring gene T cell receptor alpha joining 30 Neighboring gene T cell receptor alpha joining 29 Neighboring gene T cell receptor alpha joining 28 Neighboring gene T cell receptor alpha joining 27 Neighboring gene T cell receptor alpha joining 23 Neighboring gene T cell receptor alpha joining 24 Neighboring gene T cell receptor alpha joining 25 (non-functional) Neighboring gene T cell receptor alpha joining 26 Neighboring gene T cell receptor alpha joining 22 Neighboring gene T cell receptor alpha joining 21 Neighboring gene T cell receptor alpha joining 20 Neighboring gene T cell receptor alpha joining 19 (non-functional) Neighboring gene T cell receptor alpha joining 18 Neighboring gene T cell receptor alpha joining 17 Neighboring gene T cell receptor alpha joining 16 Neighboring gene T cell receptor alpha joining 12 Neighboring gene T cell receptor alpha joining 13 Neighboring gene T cell receptor alpha joining 14 Neighboring gene T cell receptor alpha joining 15 Neighboring gene T cell receptor alpha joining 11 Neighboring gene T cell receptor alpha joining 10 Neighboring gene T cell receptor alpha joining 9 Neighboring gene T cell receptor alpha joining 8 Neighboring gene T cell receptor alpha joining 7 Neighboring gene T cell receptor alpha joining 6 Neighboring gene T cell receptor alpha joining 5 Neighboring gene T cell receptor alpha joining 4 Neighboring gene T cell receptor alpha joining 3 Neighboring gene T cell receptor alpha joining 2 (non-functional) Neighboring gene T cell receptor alpha joining 1 (non-functional) Neighboring gene T cell receptor alpha constant Neighboring gene defender against cell death 1 Neighboring gene abhydrolase domain containing 4

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details

    Related articles in PubMed

    1. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. Comuzzie AG, et al. PLoS One, 2012. PMID 23251661.
    2. SGTA recognizes a noncanonical ubiquitin-like domain in the Bag6-Ubl4A-Trc35 complex to promote endoplasmic reticulum-associated degradation. Xu Y, et al. Cell Rep, 2012 Dec 27. PMID 23246001.
    3. Combined TCRG and TCRA TREC analysis reveals increased peripheral T-lymphocyte but constant intra-thymic proliferative history upon ageing. van der Weerd K, et al. Mol Immunol, 2013 Mar. PMID 23000520.
    4. Minimal conformational plasticity enables TCR cross-reactivity to different MHC class II heterodimers. Holland CJ, et al. Sci Rep, 2012. PMID 22953050.
    5. A GxxxG-like motif within HIV-1 fusion peptide is critical to its immunosuppressant activity, structure, and interaction with the transmembrane domain of the T-cell receptor. Faingold O, et al. J Biol Chem, 2012 Sep 28. PMID 22872636.

    See all (82) citations in PubMed

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. MHC-II restricted T-cell receptors (TCRs) may employ a distinct binding mode compared to MHC-I restricted TCRs to engage multiple different ligands.
      Title: Minimal conformational plasticity enables TCR cross-reactivity to different MHC class II heterodimers.
    2. TCRG and TCRA analysis reveals increased peripheral T-lymphocyte but constant intra-thymic proliferative history upon aging.
      Title: Combined TCRG and TCRA TREC analysis reveals increased peripheral T-lymphocyte but constant intra-thymic proliferative history upon ageing.
    3. A GxxxG-like motif within HIV-1 fusion peptide is critical to its immunosuppressant activity, structure, and interaction with the transmembrane domain of the T-cell receptor
      Title: A GxxxG-like motif within HIV-1 fusion peptide is critical to its immunosuppressant activity, structure, and interaction with the transmembrane domain of the T-cell receptor.
    4. analysis of synergistic effects of interleukin-7 and pre-T cell receptor signaling in human T cell development
      Title: Synergistic effects of interleukin-7 and pre-T cell receptor signaling in human T cell development.
    5. Data show that of granulocyte colony-stimulating factor (G-CSF) mobilization had an effect on the expression patterns, clonality signal transduction of T cell receptors TRAV and TRBV repertoire of alphabeta(+) T cells.
      Title: Effect of granulocyte colony-stimulating factor mobilization on the expression patterns, clonality and signal transduction of TRAV and TRBV repertoire.
    6. T-cell antigen receptor (TCR)-mediated Erk activation requires RasGRP1, but not Grb2/Sos.
      Title: TCR-mediated Erk activation does not depend on Sos and Grb2 in peripheral human T cells.
    7. The study extends on the observation of a strong multiethnic association of polymorphisms in the TCRA and P2RY11 with narcolepsy, but does not confirm the association of CPT1B/CHKB (rs5770917) in the Chinese population.
      Title: TCRA, P2RY11, and CPT1B/CHKB associations in Chinese narcolepsy.
    8. Germline transcriptional activation of Tcra is dependent on constant phospholipase Cgamma, as well as calcineurin- and MAPK/ERK-mediated signaling, indicating that inducible transcription factors are crucially involved.
      Title: Tcra enhancer activation by inducible transcription factors downstream of pre-TCR signaling.
    9. TCRCalpha-560 C/T gene polymerphism may be associated with the occurrence of intermittent microscopic hematuria and proteinuria in Chinese Uygur IgA nephropathy patients
      Title: Correlation between TCRCalpha -560 C/T polymorphism and the clinical presentation of Uygur IgA nephropathy patients in XinJiang.
    10. Basal LAT-diacylglycerol-RasGRP1 signals in T cells maintain TCRalpha gene expression.
      Title: Basal LAT-diacylglycerol-RasGRP1 signals in T cells maintain TCRα gene expression.
    Submit: New GeneRIF Correction See all (55)

    Review eQTL and phenotype association data in this region using PheGenI

    Products Interactant Other Gene Complex Source Pubs Description
    BioGRID:112815 BioGRID:113647 BAG6    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:112815 BioGRID:117140 CD2AP    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:112815 BioGRID:119636 GET4    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:112815 BioGRID:109350 HLA-A    BioGRID  PubMed Co-crystal Structure 
    BioGRID:112815 BioGRID:109368 HLA-DRB1    BioGRID  PubMed Co-crystal Structure 
    BioGRID:112815 BioGRID:111465 MED1    BioGRID  PubMed Co-purification 
    BioGRID:112815 BioGRID:115293 MED12    BioGRID  PubMed Co-purification 
    BioGRID:112815 BioGRID:114699 MED14    BioGRID  PubMed Co-purification 
    BioGRID:112815 BioGRID:115342 MED16    BioGRID  PubMed Co-purification 
    BioGRID:112815 BioGRID:114830 MED17    BioGRID  PubMed Co-purification 
    BioGRID:112815 BioGRID:115196 MED24    BioGRID  PubMed Co-purification 
    BioGRID:112815 BioGRID:116691 NCOA6    BioGRID  PubMed Reconstituted Complex; Two-hybrid 
    BioGRID:112815 BioGRID:111461 PPARA    BioGRID  PubMed Co-localization 
    BioGRID:112815 BioGRID:112300 SEL1L    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:112815 BioGRID:119029 SH3KBP1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:112815 BioGRID:112523 SNTA1    BioGRID  PubMed Protein-peptide 
    BioGRID:112815 BioGRID:124085 SYVN1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:112815 BioGRID:115292 THRAP3    BioGRID  PubMed Co-purification 
    BioGRID:112815 BioGRID:113885 UBL4A    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:112815 BioGRID:116078 USP19    BioGRID  PubMed Affinity Capture-Western 
    • Cytokines and Inflammatory Response, organism-specific biosystem (from WikiPathways)
      Cytokines and Inflammatory Response, organism-specific biosystemInflammation is a protective response to infection by the immune system that requires communication between different classes of immune cells to coordinate their actions. Acute inflammation is an imp...
    • TCR Signaling Pathway, organism-specific biosystem (from WikiPathways)
      TCR Signaling Pathway, organism-specific biosystemThe T-cell antigen receptor (TCR) complex is composed of a ligand-binding subunit, the ? and ? chains, and a signaling subunit, namely the CD3?, ? and ? chains and the TCR? chain. This complex partic...

    Markers

    Clone Names

    • FLJ22602, MGC22624, MGC23964, MGC71411, MGC117436
    Names
    T cell receptor alpha locus
    T-cell receptor, alpha (V,D,J,C)
    T-cell antigen receptor, alpha polypeptide

    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.

    Genomic

    1. NG_001332.2 Reference

      Range
      145152..1076166
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 104

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

    Reference GRCh37.p10 Primary Assembly

    Genomic

    1. NC_000014.8 Reference GRCh37.p10 Primary Assembly

      Range
      22090057..23021075
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000146.1 Alternate HuRef

      Range
      2207926..3139292
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.0

    Genomic

    1. NC_018925.1 Alternate CHM1_1.0

      Range
      3086831..4018397
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    genomic ABBA01061263.1 (5401..15599) None
    genomic ABBA01061264.1 None
    genomic ABBA01061265.1 None
    genomic ABBA01061266.1 None
    genomic ABBA01061267.1 None
    genomic ABBA01061268.1 None
    genomic ABBA01061269.1 None
    genomic ABBA01061270.1 None
    genomic ABBA01061271.1 None
    genomic ABBA01061272.1 None
    genomic ABBA01061273.1 None
    genomic ABBA01061274.1 None
    genomic ABBA01061275.1 None
    genomic ABBA01061276.1 None
    genomic ABBA01061277.1 None
    genomic ABBA01061278.1 None
    genomic ABBA01061279.1 None
    genomic AE000521.1 AAB68997.1
      AAB68998.1
      AAB69000.1
      AAB69001.1
    genomic AE000658.1 (127701..250472) None
    genomic AE000659.1 (2..251142) None
    genomic AE000660.1 (2..251067) None
    genomic AE000661.1 (2..247820) None
    genomic AE000662.1 (2..58222) None
    genomic AMYH01005596.1 (70937..584314) None
    genomic AMYH01005597.1 None
    genomic M94081.1 (43971..69970) None

    Additional Links

    Gene LinkOut

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

    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous

      Supplemental Content

      Table of contents

      Related information

      • BioAssay
        Related PubChem BioAssays
      • BioAssay, by Protein Target
        BioAssay, by Protein Target
      • BioProjects
        BioProjects related to a gene
      • BioSystems
        BioSystems
      • Conserved Domains
        Conserved Domain Database Links between Entrez Gene and Conserved Domain Database (CDD) are calculated from the domains annotated by the CDD group on Reference Sequence proteins.
      • dbVar
        Link from Gene to dbVar
      • Full text in PMC
        PMC links
      • Full text in PMC_nucleotide
        Full text in PubMedCentral identified from shared sequence links
      • GAP
        GAP Links
      • GEO Profiles
        Related GEO
      • Map Viewer
        These links are maintained by the Map Viewer group and are provided when a GeneID is annotated on a map for the same species.
      • Nucleotide
        Link to related Nucleotide entry
      • OMIM
        Links between OMIM and Gene are calculated by Gene based on MIM numbers included in the summary and phenotype sections of the Gene record.
      • Probe
        Related Probe entry
      • Protein
        Link to related protein entry
      • PubChem Compound
        PubChem Compounds
      • PubChem Substance
        PubChem Substances
      • PubMed
        Links between Gene and PubMed are the result of the following: 1. Manual curation within NCBI. Part of the process of generating a REVIEWED RefSeq is an analysis of the current literature. Papers that are seminal in defining the gene, its sequence, and its function are added to the record at that time. Alert users point out gaps or errors in papers associated with a Gene record. These messages are reviewed and implemented as required. 2. Integration of information from other public databases. Gene integrates gene-citation from resources external to NCBI such as model organism-specific databases, Gene Ontology (GO), groups curating interactions, and sequence databases. The assumption in using these source is that they report citations specific to a gene in a known species. Gene does not process citations from OMIM automatically, because many of citations in OMIM refer to studies of genes in species other than human.
      • PubMed (GeneRIF)
        GeneRIF -- Gene Reference Into Function Staff of the Index Section in the National Library of Medicine review the current literature. When they find articles focused on the structure and function of a gene, they write a brief summary of the impact of the paper and make the connection between the citation (PubMed) and Gene. An interface exists for interested users to submit such data as well. http://www.ncbi.nlm.nih.gov/projects/GeneRIF/GeneRIFhelp.html
      • PubMed (OMIM)
        Links are provided when Gene has a link to a record in OMIM, and OMIM explicitly cites these publications in PubMed.
      • PubMed(nucleotide/PMC)
        Citations in PubMed identified from shared sequence and PMC links.
      • Taxonomy
        Link to related taxonomy entry
      • UniSTS
        Related UniSTS records

      Links to other resources

      General information

      Related sites

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