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TRB Gene

protein-coding   GIFtS: 23
GCID: GC07P142839

T Cell Receptor Beta Locus


(Previous symbols: TCRB, TRB@)
Pneumococci & Pneumococcal Diseases Congress
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
T Cell Receptor Beta Locus1 2     T-Cell Antigen Receptor1
TCRB1 2     T-Cell Receptor1
TRB@1 2     T-Cell Antigen Receptor, Beta Polypeptide, T-Cell Receptor, Beta Cluster2
Beta Cluster1     T-Cell Receptor, Beta Cluster2
Beta Polypeptide1     CTRB15

External Ids:    HGNC: 121551   Entrez Gene: 69572   OMIM: 1188905   

Export aliases for TRB gene to outside databases

Previous GC identifer: GC07P142763


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for TRB Gene:
T cell receptors recognize foreign antigens which have been processed as small peptides and bound to major
histocompatibility complex (MHC) molecules at the surface of antigen presenting cells (APC). Each T cell receptor
is a dimer consisting of one alpha and one beta chain or one delta and one gamma chain. In a single cell, the T
cell receptor loci are rearranged and expressed in the order delta, gamma, beta, and alpha. If both delta and
gamma rearrangements produce functional chains, the cell expresses delta and gamma. If not, the cell proceeds to
rearrange the beta and alpha loci. This region represents the germline organization of the T cell receptor beta
locus. The beta locus includes V (variable), J (joining), diversity (D), and C (constant) segments. During T cell
development, the beta chain is synthesized by a recombination event at the DNA level joining a D segment with a J
segment; a V segment is then joined to the D-J gene. The C segment is later joined by splicing at the RNA level.
Recombination of many different V segments with several J segments provides a wide range of antigen recognition.
Additional diversity is attained by junctional diversity, resulting from the random additional of nucleotides by
terminal deoxynucleotidyltransferase. Several V segments and one J segment of the beta locus are known to be
incapable of encoding a protein and are considered pseudogenes. The beta locus also includes eight trypsinogen
genes, three of which encode functional proteins and five of which are pseudogenes. Chromosomal abnormalities
involving the T-cell receptor beta locus have been associated with T-cell lymphomas. (provided by RefSeq, Jul
2008)

GeneCards Summary for TRB Gene:
TRB (T cell receptor beta locus) is a protein-coding gene. Diseases associated with TRB include eosinophilic fasciitis, and guttate psoriasis.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for TRB
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRB promoter sequence
   Search Chromatin IP Primers for TRB

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRB


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 7q34   HGNC cytogenetic band: 7q34

TRB Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRB gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07P142839:  view genomic region     (about GC identifiers)

Start:
141,998,851 bp from pter      End:
142,510,972 bp from pter
Size:
512,122 bases      Orientation:
plus strand

2 alternative locations:
Chr7+,NW_003571040 441,002-1,016,331      Chr7+,CRA_TCAG 141,337,044-141,912,827     

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
TRB: T cell receptors / TRB locus

  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Phenotypes:
     13 MGI mutant phenotypes (inferred from 19 alleles(MGI details for Tcrb):
 cardiovascular system  digestive/alimentary  growth/size/body  hematopoietic system  immune system 
 integument  liver/biliary system  mortality/aging  nervous system  normal 
 renal/urinary system  respiratory system  tumorigenesis 

TRB for phenotypes           About GeneDecksing

Animal Models:
     MGI mouse knock-outs for TRB: Tcrbtm1Slek Tcrbtm4Slek Tcrbtm1Mom Tcrbtm2Slek Tcrbtm1Habu Tcrbtm7Slek
                                                     Tcrbtm3Slek Tcrbtm5Slek

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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  --

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for TRB About   (see all 12)  
See pathways by source

SuperPathContained pathways About
1Immune response NFAT in immune response
Immune response NFAT in immune response0.55
Immune response T cell receptor signaling pathway0.50
Immune response ICOS pathway in T helper cell0.55
Immune response CD28 signaling0.49
2Immune response Antigen presentation by MHC class II
Immune response Antigen presentation by MHC class II0.46
Immune response IL 22 signaling pathway0.31
G protein signaling N RAS regulation pathway0.46
3CDK-mediated phosphorylation and removal of Cdc6
Immune response Antigen presentation by MHC class I0.68
4Development Angiotensin activation of ERK
Signal transduction IP3 signaling0.43
5Immune response Function of MEF2 in T lymphocytes
Immune response Function of MEF2 in T lymphocytes0.38

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways


Selected GeneGo (Thomson Reuters) Pathways for TRB (see all 15)
    G-protein signaling Regulation of RAC1 activity
Immune response Antigen presentation by MHC class II
Immune response CD28 signaling
Immune response IL-12-induced IFN-gamma production
G-protein signaling N-RAS regulation pathway

2 BioSystems Pathways for TRB
    Cytokines and Inflammatory Response
TCR Signaling Pathway


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Interactions:

    Search GeneGlobe Interaction Network for TRB

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for TRB

Selected Novoseek inferred chemical compound relationships for TRB gene (see all 15)    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
bgl ii 50.6 3 1979939 (1), 7567936 (1), 1679291 (1)
enterotoxin 42.5 3 8486394 (1), 8613483 (1), 9500785 (1)
bamhi 26.6 1 7567936 (1)
hind iii 24.1 2 7567936 (1), 11422051 (1)
ecori 23.7 1 7567936 (1)
paraffin 21.9 1 7959674 (1)
cyclosporin a 12.1 2 1591215 (1), 8500270 (1)
oligonucleotide 6.06 3 7823247 (1), 8599453 (1), 1848269 (1)
polyacrylamide 4.36 1 8882133 (1)
calcium 0.542 1 2052609 (1)



TRB for compounds           About GeneDecksing



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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miRNA
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Inhib. RNA
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Primer
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GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

TRB Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for TRB
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In Situ
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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRB

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of human and mouse.

Orthologs for TRB gene from 1 species (see representative species )    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Tcrb5 T cell receptor beta chain   --   6 -

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Locus Specific Mutation Databases (LSDB): TRB

Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing TRB
DNA2.0 Custom Variant and Variant Library Synthesis for TRB

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 118890    OMIM disorders: --

Selected diseases for TRB (see all 108):    
About MalaCards
eosinophilic fasciitis    guttate psoriasis    precursor t-cell acute lymphoblastic leukemia    stromal keratitis
pleurisy    posterior uveitis    lymphoid leukemia    dermatitis herpetiformis
lymphomatoid papulosis    myeloproliferative disorder    leukemia/lymphoma, t-cell    angioimmunoblastic t-cell lymphoma
spondylarthropathy    large granular lymphocyte leukemia    pure red-cell aplasia    paraneoplastic syndromes
pemphigus foliaceus    churg-strauss syndrome    sjogren's syndrome    mycosis fungoides


TRB for disorders           About GeneDecksing


Congresses - knowledge worth sharing:
The International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD) 9 - 13 March 2014

Selected Novoseek inferred disease relationships for TRB gene (see all 92)    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
lymphoma t-cell 75.5 9 2154349 (2), 18952689 (1), 8100721 (1), 2163138 (1) (see all 8)
lymphoma t-cell cutaneous 69.7 9 16741518 (2), 1836348 (1), 12682631 (1), 2153627 (1) (see all 8)
granulomatous slack skin 69.4 1 1316105 (1)
lymphoma t-cell peripheral 65.8 1 16237215 (1)
lymphoma 64.4 15 2207314 (1), 8231259 (1), 8160632 (1), 9723588 (1) (see all 14)
sezary syndrome 64.4 3 7492785 (1), 1848269 (1), 16741518 (1)
lymphoma large cell 62.9 4 2169708 (1), 1493464 (1), 8396607 (1), 7505507 (1)
lymphoproliferative disorders 62.4 1 1953508 (1)
lymphocytosis 59.9 3 7890378 (1), 9519776 (1), 1695480 (1)
mycosis fungoides 58.1 7 8396607 (1), 2036034 (1), 1731519 (1), 8133398 (1) (see all 6)


Export disorders for TRB gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for TRB gene, integrated from 10 sources (see all 385):
(articles sorted by number of sources associating them with TRB)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Location of gene for beta subunit of human T-cell receptor at band 7q35, a region prone to rearrangements in T cells. (PubMed id 3983641)1, 3 Isobe M....Croce C.M. (Science 1985)
  2. Molecular analysis of T-cell receptor beta genes in cutaneous T-cell lymphoma reveals Jbeta1 bias. (PubMed id 16741518)1, 9 Morgan S.M....Smith J.L. (J. Invest. Dermatol. 2006)
  3. Analysis of the insertion/deletion related polymorphism within T cell antigen receptor beta variable genes in primary SjAPgren's syndrome. (PubMed id 15708895)1, 9 Lawson C.A....Boylston A.W. (Ann. Rheum. Dis. 2005)
  4. Mutations of the T-cell receptor constant region after in utero stem cell transplantation. (PubMed id 15138733)1, 9 Pirovano S....Imberti L. (Immunogenetics 2004)
  5. Analysis of the T-cell receptor beta-chain variable-region (Vbeta) repertoire in chronic human Chagas' disease. (PubMed id 12366778)1, 9 FernA!ndez-Mestre M.T....Layrisse Z. (Tissue Antigens 2002)
  6. Identification and functional characterization of the human T-cell receptor beta gene transcriptional enhancer: common nuclear proteins interact with the transcriptional regulatory elements of the T-cell receptor alpha and beta genes. (PubMed id 2144610)1, 9 Gottschalk L.R. and Leiden J.M. (Mol. Cell. Biol. 1990)
  7. Dietary gluten triggers concomitant activation of CD4+ and CD8+ I+I^ T cells and I^I' T cells in celiac disease. (PubMed id 23878218)1 Han A....Davis M.M. (Proc. Natl. Acad. Sci. U.S.A. 2013)
  8. Decrease in pool of T lymphocytes with surface phenotypes of effector and central memory cells under influence of TCR transgenic I^-chain expression. (PubMed id 23848158)1 Silaeva Y.Y....Kazansky D.B. (Biochemistry Mosc. 2013)
  9. The impact of a large and frequent deletion in the human TCR I^ locus on antiviral immunity. (PubMed id 22323539)1 Brennan R.M....Burrows S.R. (J. Immunol. 2012)
  10. Effect of granulocyte colony-stimulating factor mobilization on the expression patterns, clonality and signal transduction of TRAV and TRBV repertoire. (PubMed id 22658922)1 Xuan L....Liu Q. (Immunobiology 2012)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Disorders
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 6957 HGNC: 12155 euGenes: HUgn6957 ECgene: TRB H-InvDB: TRB

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for TRB Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for TRB gene:
Search GeneIP for patents involving TRB

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

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