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TRB (T cell Receptor Beta)

Identity

HGNC TRB@
Location 7q35
Location_base_pair Starts at 141612136 and ends at 142293599 bp from pter ( according to hg18-Mar_2006).
 
  for complete Figure, see: chromosome 7, IMGT (The International ImMunoGeneTics information system ® ) © Copyright 1995-2003 IMGT, IMGT is a CNRS trademark
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; 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 systemŽ) © Copyright 1995-2003 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

    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 LCK in 1p34
    Disease T-cell acute lymphocytic leukemia (ALL)
      
    Entity t(1;7)(p32;q35); involve TAL1 in 1p32
    Disease T-cell acute lymphocytic leukemia (ALL)
    Prognosis median survival > 5 yrs in children
      
    Entity t(7;9)(q35;q32); involve TAL2 in 9q32
    Disease T-cell acute lymphocytic leukemia (ALL)
      
    Entity t(7;9)(q35;q34); involve TAN1 in 9q34
    Disease T-cell acute lymphocytic leukemia (ALL)
      
    Entity t(7;10)(q35;q24); involve 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 RBTN2 in 11p13
    Disease T-cell acute lymphocytic leukemia (ALL)
      
    Entity t(7;14)(q35;q32); involve TCL1 in 14q32
    Disease T-cell lymphoproliferations
      
    Entity t(7;19)(q35;p13); involve LYL1 in 19p13
    Disease T-cell acute lymphoblastic leukemia (ALL)
      

    Breakpoints

     

    External links

    Nomenclature
    HGNCTRB@   12155
    Entrez_GeneTRB@  6957  T cell receptor beta locus
    Cards
    AtlasTCRBID24
    GeneCardsTRB@
    EnsemblENSG00000124678 [Gene_View]  TRB@ [Vega]
    GenatlasTRB@
    Genomic and cartography
    GoldenPathTRB@  -  7q35   chr7:141612136-142293599 +  7q34   [Description]    (hg18-Mar_2006)
    EnsemblTRB@ - 7q34 [CytoView]
    NCBIMapview
    OMIM186930 Disease map [OMIM]
    HomoloGeneTRB@
    Gene and transcription
    Genbank- [ ENTREZ ]
    RefSeqAC_000068 [ SRS ]    AC_000068 [ ENTREZ ]
    RefSeqNC_000007 [ SRS ]    NC_000007 [ ENTREZ ]
    RefSeqNG_001333 [ SRS ]    NG_001333 [ ENTREZ ]
    RefSeqNG_008307 [ SRS ]    NG_008307 [ ENTREZ ]
    RefSeqNG_008322 [ SRS ]    NG_008322 [ ENTREZ ]
    RefSeqNT_007914 [ SRS ]    NT_007914 [ ENTREZ ]
    RefSeqNT_079596 [ SRS ]    NT_079596 [ ENTREZ ]
    CCDSTRB@ CCDS - NCBI
    AceViewTRB@ AceView - NCBI
    Protein : pattern, domain, 3D structure
    SwissProtP04435 [ SRS]    P04435 [ EXPASY ]     P04435 [ INTERPRO ]     P04435 [ UNIPROT ] P04435 [ VarSplice FASTA ]
    PrositePS50835 IG_LIKE [ SRS ]    PS50835 IG_LIKE [ Expasy ]
    InterproIPR007110 Ig-like [ SRS ]    IPR007110 Ig-like [ EBI ]
    InterproIPR013783 Ig-like_fold [ SRS ]    IPR013783 Ig-like_fold [ EBI ]
    InterproIPR003599 Ig_sub [ SRS ]    IPR003599 Ig_sub [ EBI ]
    InterproIPR013106 Ig_V-set [ SRS ]    IPR013106 Ig_V-set [ EBI ]
    CluSTrP04435
    PfamPF07686 V-set [ SRS ]    PF07686 V-set [ Sanger ]    pfam07686 [ NCBI-CDD ]
    SmartSM00409 IG [EMBL]
    BlocksP04435
    Protein Interaction databases
    DIPP04435
    IntActP04435
    Polymorphism : SNP, mutations, diseases
    OMIM186930    [ map ]   
    GENETests186930
    SNPTRB@ [dbSNP-NCBI]  
    SNPTRB@ [GeneSNPs - Utah]  TRB@] [HGBASE - SRS]
    HAPMAPTRB@ [HAPMAP]  
    HGMDTRB@
    Genetic AssociationTRB@
    CDC HuGETRB@
    General knowledge
    Family BrowserTRB@ [UCSC Family Browser]
    GOreceptor activity [Amigo]  receptor activity
    GOplasma membrane [Amigo]  plasma membrane
    GOplasma membrane [Amigo]  plasma membrane
    GOimmune response [Amigo]  immune response
    GOMHC protein binding [Amigo]  MHC protein binding
    GOpeptide antigen binding [Amigo]  peptide antigen binding
    PubGeneTRB@
    TreeFamTRB@
    CTD6957 [Comparative ToxicoGenomics Database]
    Other databases
    Other databaseTRB@ - IMGT
    Probes
    ProbeTRB@ Related clones (RZPD - Berlin)
    PubMed
    PubMed53 Pubmed reference(s) in Entrez

    Bibliography

    Nomenclature of the human T cell Receptor genes (Review)
    Lefranc MP
    Current Protocols in Immunology. 2000.
     
    The T cell Receptor FactsBook (Review)
    Lefranc MP and Lefranc G
    Academic Press, London, UK (. 1939.
     
    Locus Map and Genomic repertoire of the Human Immunoglobulin Genes (Review)
    Lefranc MP
    The immunologist,. 2000.
     
    REVIEW articlesautomatic search in PubMed
    Last year publicationsautomatic search in PubMed

    Search in all EBI   NCBI

    Contributor(s)

    Written07-2000Marie-Paule Lefranc
    Updated09-2003Marie-Paule Lefranc

    Citation

    This paper should be referenced as such :
    Lefranc MP . TRB (T cell Receptor Beta). Atlas Genet Cytogenet Oncol Haematol. July 2000 .
    URL : http://AtlasGeneticsOncology.org/Genes/TCRBID24.html
    Lefranc MP . TRB (T cell Receptor Beta). Atlas Genet Cytogenet Oncol Haematol. September 2003 .
    URL : http://AtlasGeneticsOncology.org/Genes/TCRBID24.html

    © Atlas of Genetics and Cytogenetics in Oncology and Haematology
    indexed on : Thu Nov 27 13:30:16 2008

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