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TRB (T cell Receptor Beta)

Written2000-07Marie-Paule Lefranc
IMGT, LIGM, IGH, UPR CNRS 1142, 141 rue de la Cardonille, 34396 Montpellier Cedex 5, France

(Note : for Links provided by Atlas : click)

Identity

Alias_namesbeta polypeptide
T-cell receptor
Other aliasTRB@ (T cell Receptor Beta)
HGNC (Hugo) TRB
LocusID (NCBI) 6957
Atlas_Id 24
Location 7q34  [Link to chromosome band 7q34]
Location_base_pair Starts at 142299011 and ends at 142813287 bp from pter
 
  for complete Figure, see: chromosome 7, IMGT (The International ImMunoGeneTics information system ®) © Copyright 1995-2017 IMGT, IMGT is a CNRS trademark
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
Note The human TRB locus is located on chromosome 7 on the long arm, at band 7q35. The orientation of the locus has been determined by the analysis of translocations, involving the TRB locus, in leukemia and lymphoma

DNA/RNA

 
  TRB
V-GENE: Green box: Functional; Red: Pseudogene.
D-GENE: Blue: Functional.
J-GENE: Yellow: Functional; Pale yellow: Open reading frame; Red: pseudogene.
C-GENE: Blue: Functional.
for complete Figure, see: locus TRB, IMGT (The International ImMunoGeneTics information system ®) © Copyright 1995-2017 IMGT, IMGT is a CNRS trademark TRB
V-GENE: Green box: Functional; Yellow box: Open reading frame; Red: Pseudogene.
D-GENE: Blue: Functional.
J-GENE: Grey: Functional .
C-GENE: Blue: Functional.
GENES NOT RELATED: Purple: Functional; Purple open box: Pseudogene.
for complete Figure, see: locus TRB, IGMT (The international ImMunoGeneTics information system) © Copyright 1995-2017 IMGT, IMGT is a CNRS trademark
Description
  • The human TRB locus at 7q35 spans 620 kb. It consists of 64-67 TRBV genes belonging to 32 subgroups.
  • Except for TRBV30, localized downstream of the TRBC2 gene, in inverted orientation of transcription, all the other TRBV genes are located upstream of a duplicated D-J-C-cluster, which comprises, for the first part one TRBD, six TRBJ, and the TRBC1 gene, and for the second part, one TRBD, eight TRBJ, and the TRBC2 gene.
  • The most 5' TRBV genes occupy the most centromeric position, whereas the TRBV30 gene, 3' of the locus, is the most telomeric gene in the TRB locus.
  • The potentiel repertoire consists of 39-46 functional TRBV genes belonging to 21-23 subgroups, the two TRBD, thirteen TRBJ (6 from the first cluster and 7 from the second cluster), and the two TRBC genes.
  • Six TRBV orphons have been localized on chromosome 9 at 9p21. Enhancer sequences have been characterized 5.5kb 3' from TRBC2.
  • List of the human TRB genes

    • Protein

    Description
  • Proteins encoded by the TRB locus are the T cell receptor beta chains. They result from the recombination (or rearrangement), at the DNA level, of three genes: TRBV, TRBD and TRBJ, with deletion of the intermediary DNA to create a rearranged TRBV-D-J gene. The rearranged TRBV-D-J gene is transcribed with one of the two TRBC genes and translated into a T cell receptor beta chain.
  • Translation of the variable germline genes involved in the TRBV-D-J rearrangements are available at IMGT Repertoire Protein displays. TRB V-D-J rearrangements can be analysed using the IMGT/V-QUEST tool.

    • Mutations

    Note Mutations which correspond to allelic polymorphisms of the functional germline TRBV, TRBD, TRBJ and TRBC genes are described in the IMGT database: (IMGT Repertoire>Alignments of alleles)

    Implicated in

    Note
      
    Entity Translocations which frequently result from errors of the recombinase enzyme complexe (RAG1, RAG2, etc.), responsable of the Immunoglobulin and T cell receptor V-J and V-D-J rearrangements. TRBV, TRBD or TRBJ recombination signals or isolated heptamer are frequently observed at the breakpoints
      
      
    Entity t(1;7)(p34;q35); involve TRB - LCK in 1p34
    Disease T-cell acute lymphocytic leukemia (ALL)
      
      
    Entity t(1;7)(p32;q35); involve TRB - TAL1 in 1p32
    Disease T-cell acute lymphocytic leukemia (ALL)
    Prognosis median survival > 5 yrs in children
      
      
    Entity t(7;9)(q35;q32); involve TRB - TAL2 in 9q32
    Disease T-cell acute lymphocytic leukemia (ALL)
      
      
    Entity t(7;9)(q35;q34); involve TRB - TAN1 in 9q34
    Disease T-cell acute lymphocytic leukemia (ALL)
      
      
    Entity t(7;10)(q35;q24); involve TRB - HOX11 in 10q24
    Disease T- cell acute lymphoblastic leukemia (ALL) and non-Hodgkin lymphoma (NHL)
    Prognosis not unfavourable
      
      
    Entity t(7;11)(q35;p13); involve TRB - RBTN2 in 11p13
    Disease T-cell acute lymphocytic leukemia (ALL)
      
      
    Entity t(7;14)(q35;q32); involve TRB - TCL1 in 14q32
    Disease T-cell lymphoproliferations
      
      
    Entity t(7;19)(q35;p13); involve TRB - LYL1 in 19p13
    Disease T-cell acute lymphoblastic leukemia (ALL)
      

    Breakpoints

     

    Bibliography

    The T cell Receptor FactsBook (Review)
    Lefranc M-P and Lefranc G
    Academic Press, London, UK (398 pages), 2001. ISBN: 124413528
     
    Locus Map and Genomic repertoire of the Human Immunoglobulin Genes (Review)
    Lefranc MP
    The immunologist,. 2000.
     

    Citation

    This paper should be referenced as such :
    Lefranc, MP
    TRB (T cell receptor beta)
    Atlas Genet Cytogenet Oncol Haematol. 2000;4(3):119-120.
    Free journal version : [ pdf ]   [ DOI ]
    On line version : http://AtlasGeneticsOncology.org/Genes/TCRBID24.html

    Other Leukemias implicated (Data extracted from papers in the Atlas)

    Leukemias PediatrTCellALLID1292 t0107p34q34ID1045 t0114ID1047 t0607q23q34ID1465 t0707p15q34ID1384
    t0709q34q32ID1056 t0709q34q34ID1055 t0712q34p13ID1434 t0714q34q11ID1839 t0714q34q11ID3284
    t0719q34p13ID1060 t0X07q22q34ID1610 t1114ID1070 TL_ins0307q26q34q22ID3290 TL_inv07p14q34ID3374
    TL_inv07p14q34ID3375 TL_inv07p15q34ID3376 TL_t0707p15q34ID3285 TL_t0707p15q34ID3286 TL_t0708q34q24ID3291
    TL_t0710q34q24ID3261 TL_t0710q34q24ID3292 TL_t0711q34p15ID3147 TL_t0711q34p15ID3289 TL_t0720q34q11ID2862
    TL_t0722q34q12ID3287 TL_tX07q22q34ID3288 tX14q28q11ID2051

    External links

    Nomenclature
    HGNC (Hugo)TRB   12155
    Cards
    AtlasTCRBID24
    Entrez_Gene (NCBI)TRB  6957  T cell receptor beta locus
    AliasesTCRB; TRB@
    GeneCards (Weizmann)TRB
    Ensembl hg19 (Hinxton) [Gene_View]
    Ensembl hg38 (Hinxton) [Gene_View]   [Sequence]  chr7:142299011-142813287 [Contig_View]  TRB [Vega]
    TCGA cBioPortalTRB
    AceView (NCBI)TRB
    Genatlas (Paris)TRB
    WikiGenes6957
    SOURCE (Princeton)TRB
    Genetics Home Reference (NIH)TRB
    Genomic and cartography
    GoldenPath hg38 (UCSC)TRB  -     chr7:142299011-142813287 7q34  hg19-Feb_2009   [Description]    (hg38-Dec_2013)
    GoldenPath hg19 (UCSC)TRB  -     hg19-Feb_2009   [Description]    (hg19-Feb_2009)
    GoldenPathTRB - hg19-Feb_2009 [CytoView hg19]  TRB - hg19-Feb_2009 [CytoView hg38]
    Mapping of homologs : NCBITRB [Mapview hg19]  TRB [Mapview hg38]
    Gene and transcription
    Genbank (Entrez)-
    RefSeq transcript (Entrez)
    RefSeq genomic (Entrez)NC_000007 NG_001333 NT_187562
    Consensus coding sequences : CCDS (NCBI)TRB
    Gene ExpressionTRB [ NCBI-GEO ]   TRB [ EBI - ARRAY_EXPRESS ]   TRB [ SEEK ]   TRB [ MEM ]
    Gene Expression Viewer (FireBrowse)TRB [ Firebrowse - Broad ]
    SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
    BioGPS (Tissue expression)6957
    GTEX Portal (Tissue expression)TRB
    Protein : pattern, domain, 3D structure
    Domain families : Pfam (Sanger)
    Domain families : Pfam (NCBI)
    Conserved Domain (NCBI)TRB
    DMDM Disease mutations6957
    Blocks (Seattle)TRB
    Protein Interaction databases
    BioGRIDTRB
    STRING (EMBL)TRB
    ZODIACTRB
    Ontologies - Pathways
    Huge Navigator TRB [HugePedia]
    snp3D : Map Gene to Disease6957
    BioCentury BCIQTRB
    ClinGenTRB
    Clinical trials, drugs, therapy
    Chemical/Protein Interactions : CTD6957
    Chemical/Pharm GKB GenePA36837
    Clinical trialTRB
    Miscellaneous
    canSAR (ICR)TRB (select the gene name)
    DataMed IndexTRB
    Other databaseTRB@ - IMGT
    Probes
    Litterature
    PubMed114 Pubmed reference(s) in Entrez
    GeneRIFsGene References Into Functions (Entrez)
    CoreMineTRB
    EVEXTRB
    GoPubMedTRB
    iHOPTRB
    REVIEW articlesautomatic search in PubMed
    Last year publicationsautomatic search in PubMed

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    indexed on : Mon Aug 12 15:16:19 CEST 2019
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