TRB (T cell Receptor Beta)

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TRB (T cell Receptor Beta)

Written	2000-07	Marie-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_names	TCRB
	TRB@
	TCRB, TRB@
Other alias	TRB@ (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_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
Atlas	TCRBID24
Entrez_Gene (NCBI)	TRB 6957 T cell receptor beta locus
Aliases	TCRB; TRB@
GeneCards (Weizmann)	TRB
Ensembl hg19 (Hinxton)	[Gene_View]
Ensembl hg38 (Hinxton)	[Gene_View] [Sequence] chr7:142299011-142813287 [Contig_View] TRB [Vega]
TCGA cBioPortal	TRB
AceView (NCBI)	TRB
Genatlas (Paris)	TRB
WikiGenes	6957
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)
GoldenPath	TRB - hg19-Feb_2009 [CytoView hg19] TRB - hg19-Feb_2009 [CytoView hg38]
Mapping of homologs : NCBI	TRB [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 Expression	TRB [ 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]
Genevestigator	Expression in : [tissues] [cell-lines] [cancer] [perturbations]
BioGPS (Tissue expression)	6957
GTEX Portal (Tissue expression)	TRB
	Protein : pattern, domain, 3D structure
UniProt/SwissProt	P0DSE2 [function] [subcellular_location] [family_and_domains] [pathology_and_biotech] [ptm_processing] [expression] [interaction]
NextProt	P0DSE2 [Sequence] [Exons] [Medical] [Publications]
With graphics : InterPro	P0DSE2
Splice isoforms : SwissVar	P0DSE2
PhosPhoSitePlus	P0DSE2
Domains : Interpro (EBI)	Ig-like_dom Ig-like_dom_sf Ig-like_fold Ig_C1-set Ig_sub Ig_V-set
Domain families : Pfam (Sanger)	C1-set (PF07654) V-set (PF07686)
Domain families : Pfam (NCBI)	pfam07654 pfam07686
Domain families : Smart (EMBL)	IG (SM00409) IGc1 (SM00407) IGv (SM00406)
Conserved Domain (NCBI)	TRB
DMDM Disease mutations	6957
Blocks (Seattle)	TRB
PDB (RSDB)	1OGA 2VLJ 2VLK 2VLR 5HHM 5HHO
PDB Europe	1OGA 2VLJ 2VLK 2VLR 5HHM 5HHO
PDB (PDBSum)	1OGA 2VLJ 2VLK 2VLR 5HHM 5HHO
PDB (IMB)	1OGA 2VLJ 2VLK 2VLR 5HHM 5HHO
Structural Biology KnowledgeBase	1OGA 2VLJ 2VLK 2VLR 5HHM 5HHO
SCOP (Structural Classification of Proteins)	1OGA 2VLJ 2VLK 2VLR 5HHM 5HHO
CATH (Classification of proteins structures)	1OGA 2VLJ 2VLK 2VLR 5HHM 5HHO
Superfamily	P0DSE2
Peptide Atlas	P0DSE2
	Protein Interaction databases
DIP (DOE-UCLA)	P0DSE2
IntAct (EBI)	P0DSE2
BioGRID	TRB
STRING (EMBL)	TRB
ZODIAC	TRB
	Ontologies - Pathways
QuickGO	P0DSE2
Ontology : AmiGO
Ontology : EGO-EBI
NDEx Network	TRB
Atlas of Cancer Signalling Network	TRB
Wikipedia pathways	TRB
	Orthology - Evolution
OrthoDB	6957
Phylogenetic Trees/Animal Genes : TreeFam	TRB
HOGENOM	P0DSE2
Homologs : HomoloGene	TRB
Homology/Alignments : Family Browser (UCSC)	TRB
	Gene fusions - Rearrangements
Fusion : Mitelman	TRA/TRB [-/-] [t(7;14)(q34;q11)]
Fusion : Mitelman	TRB/CCND2 [-/12p13.32] [t(7;12)(q34;p13)]
Fusion : Mitelman	TRB/HOXA10 [-/7p15.2] [inv(7)(p15q34)]
Fusion : Mitelman	TRB/HOXA11 [-/7p15.2] [inv(7)(p15q34)]
Fusion : Mitelman	TRB/HOXA@ [-/-] [inv(7)(p15q34)] [t(7;7)(p15;q34)]

Fusion : Mitelman	TRB/IRS4 [-/Xq22.3] [t(X;7)(q22;q34)]
Fusion : Mitelman	TRB/LCK [-/1p35.1] [t(1;7)(p35;q34)]
Fusion : Mitelman	TRB/LMO1 [-/11p15.4] [t(7;11)(q34;p15)]
Fusion : Mitelman	TRB/LYL1 [-/19p13.2] [t(7;19)(q34;p13)]
Fusion : Mitelman	TRB/MECOM [-/3q26.2] [ins(3;7)(q26;q34q22)]
Fusion : Mitelman	TRB/MYB [-/6q23.3] [dup(6)(q23q23)] [t(6;7)(q23;q34)]

Fusion : Mitelman	TRB/NOTCH1 [-/9q34.3] [t(7;9)(q34;q34)]
Fusion : Mitelman	TRB/TAL2 [-/9q31.2] [t(7;9)(q34;q31)]
Fusion : Mitelman	TRB/TLX1 [-/10q24.31] [t(10;14)(q24;q11)] [t(7;10)(q34;q24)]

Fusion : Fusion_Hub	TRB--BV03S1J2.2 TRB--NOTCH1 TRB--TCRVB
Fusion : Quiver	TRB
	Polymorphisms : SNP and Copy number variants
NCBI Variation Viewer	TRB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)	TRB
dbVar	TRB
ClinVar	TRB
1000_Genomes	TRB
Exome Variant Server	TRB
Varsome Browser	TRB
Genetic variants : HAPMAP	6957
Genomic Variants (DGV)	TRB [DGVbeta]
DECIPHER	TRB [patients] [syndromes] [variants] [genes]
CONAN: Copy Number Analysis	TRB
	Mutations
ICGC Data Portal	TRB
TCGA Data Portal	TRB
Broad Tumor Portal	TRB
OASIS Portal	TRB [ Somatic mutations - Copy number]
Mutations and Diseases : HGMD	TRB
BioMuta	search TRB
DgiDB (Drug Gene Interaction Database)	TRB
DoCM (Curated mutations)	TRB (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)	TRB (select a term)
intoGen	TRB
NCG5 (London)	TRB
Cancer3D	TRB(select the gene name)
Impact of mutations	[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
	Diseases
OMIM
Orphanet	14434
DisGeNET	TRB
Medgen	TRB
Genetic Testing Registry	TRB
NextProt	P0DSE2 [Medical]
TSGene	6957
GENETests	TRB
Target Validation	TRB
Huge Navigator	TRB [HugePedia]
snp3D : Map Gene to Disease	6957
BioCentury BCIQ	TRB
ClinGen	TRB
	Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD	6957
Chemical/Pharm GKB Gene	PA36837
Clinical trial	TRB
	Miscellaneous
canSAR (ICR)	TRB (select the gene name)
Harmonizome	TRB
DataMed Index	TRB
Other database	TRB@ - IMGT
	Probes
	Litterature
PubMed	114 Pubmed reference(s) in Entrez
GeneRIFs	Gene References Into Functions (Entrez)
CoreMine	TRB
EVEX	TRB
GoPubMed	TRB
iHOP	TRB

REVIEW articles	automatic search in PubMed
Last year publications	automatic search in PubMed

Search in all EBI NCBI

indexed on : Wed Mar 11 18:45:58 CET 2020

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