Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   
X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

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 142797459 and ends at 142802518 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) [ 36 ]
      t(10;14)(q24;q11) TLX1/TRD::t(7;10)(q34;q24) TRB/HOX11
    Hepatosplenic T-cell lymphoma (HSTCL)
    Intestinal T-cell lymphoma
    Pediatric T-Cell Acute Lymphoblastic Leukemia
    t(1;7)(p34;q34) TRB/LCK
    t(1;7)(p32;q34) TRB/TAL1::t(1;14)(p32;q11) TRA/TAL1::1p32 rearrangements
    t(6;7)(q23;q34) TRB/MYB and AHI1
    inv(7)(p15q34) TRB/HOXA10::t(7;7)(p15;q34) TRB/HOXA10
    t(7;9)(q34;q32) TRB/TAL2
    t(7;9)(q34;q34) TRB/NOTCH1
    t(7;12)(q34;p13) TRB/CCND2::t(12;14)(p13;q11) TRA or TRD/CCND2
    t(7;14)(p15;q11) TRD/HOXA10
    t(7;14)(p15;q32)
    t(7;14)(q34;q11) TRA/TRB
    t(7;19)(q34;p13) TRB/LYL1
    t(X;7)(q22;q34) IRS4/TRB
    t(11;14)(p13;q11) TRD/LMO2::t(7;11)(q35;p13) TRB/LMO2
    t(20;21)(q13.2;q22.12) ZFP64/RUNX1
    T-lineage acute lymphoblastic leukemia (T-ALL)
    T-cell large granular lymphocyte leukaemia
    ins(3;7)(q26;q34q22) TRB/MECOM
    t(7;7)(p15;q34) HOXA10/TRB
    inv(7)(p15q34)ort(7;7)(p15;q34) TRB/HOXA11
    t(7;7)(p15;q34) TRB/HOXA9
    t(7;8)(q34;q24) TRB/MYC
    t(7;9)(q34;q31) TAL2/TRB
    t(7;10)(q34;q24) TLX1/TRB
    t(7;10)(q34;q24) TRB/TLX1
    t(7;11)(q34;p15) RIC3/TRB
    t(7;11)(q34;p15) TRB/LMO1
    t(7;14)(q34;q11) TRA/TRB
    t(7;19)(q34;p13) LYL1/TRB
    t(7;20)(q34;q11) KIF3B/TRB
    t(7;22)(q34;q12) TRB/IL2RB
    t(X;7)(q22;q34) TRB/IRS4
    t(X;14)(q28;q11.2) TRA-TRD/MTCP1::t(X;7)(q28;q34) TRB/MTCP1

    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]  chr7:142797459-142802518 [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  -     chr7:142797459-142802518 7q34  hg19-Feb_2009   [Description]    (hg38-Dec_2013)
    GoldenPath hg19 (UCSC)TRB  -     hg19-Feb_2009   [Description]    (hg19-Feb_2009)
    EnsemblTRB - 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 NC_018918 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)
    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

    Search in all EBI   NCBI

    © Atlas of Genetics and Cytogenetics in Oncology and Haematology
    indexed on : Mon May 14 12:57:28 CEST 2018
    Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

    For comments and suggestions or contributions, please contact us

    jlhuret@AtlasGeneticsOncology.org.