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TRB@ Gene

gene cluster GIFtS: 43

GC07P141648

T cell receptor beta locus
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: TCRB)

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
About This Section

Aliases
TCRB ^²
TRB ^¹, ²

Descriptions
T cell receptor beta locus ^²
T-cell antigen receptor, beta polypeptide, T-cell receptor, beta cluster ^²
T-cell receptor, beta cluster ^²

External Ids
HGNC: 12155¹
Entrez Gene: 6957²
UniProtKB: P04435³
Ensembl: ENSG00000211735⁷

Search outside databases for aliases for TRB@ gene

Previous GC identifers: GC07U990096 GC07M140532 GC07P141602 GC07P141678

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for TRB@:

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]

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:

UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 7q34 Ensembl 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)

GeneLoc gene densities for chromosome 7 GeneLoc Exon Structure

GeneLoc location for GC07P141648: (about GC identifiers)

Start:	141,645,314 bp from pter
End:	142,221,097 bp from pter
Size:	575,784 bases
Orientation:	plus strand

1 alternative location:

Chr7+,CRA_TCAG 141,337,044-141,912,827

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: TVB2_HUMAN, P04435 (See protein sequence)

Recommended Name: T-cell receptor beta chain V region CTL-L17 precursor

Size: 133 amino acids; 14999 Da

Miscellaneous: This sequence was derived from a human cytotoxic T-lymphocyte that is T3+, T4+, T8-

ENSEMBL proteins:

ENSP00000374905

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
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	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Recombinant Proteins from Abcam (TCR alpha + TCR beta, TCR beta, TCR V beta 17)
	Browse Abnova for Human Recombinant Proteins

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

1 Gene Ontology (GO) cellular component term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005886	plasma membrane	NAS	2426193

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Antibodies for TRB@:

	Invitrogen Antibodies for TRB@
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Browse Antibodies at Sigma-Aldrich
	Browse R&D Systems for Antibodies
	Antibodies from Abcam (TCR alpha + TCR beta, TCR beta, TCR V beta 17), each with their Abpromise^SM
	Monoclonal and Polyclonal Antibodies from Abnova (TRB@)
	Search Novus for antibodies for TRB@

Assays for TRB@:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

Graphical View of Domain Structure for InterPro Entry P04435

ProtoNet protein and cluster: P04435

2 Blocks protein families:

IPB003599 Immunoglobulin subtype

IPB013106 Immunoglobulin V-set

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib. RNA:		Browse Invitrogen for RNAi
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Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene untagged cDNA clone in CMV expression vector: XM_114547

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: XM_114547

5 MGI mutant phenotypes (inferred from 15 alleles) (MGI details for Tcrb):

3 Gene Ontology (GO) molecular function terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0004872	receptor activity	IEA	--
GO:0042287	MHC protein binding	NAS	2426193
GO:0042605	peptide antigen binding	NAS	2426193

About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

5/38 Interacting proteins for TRB@ (ENSP00000374905³) via UniProtKB, MINT, and/or STRING (see all 38 )

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
HLA-C	ENSP00000365412³	STRING (score=.899) STRING (score=.899)
CD8A	ENSP00000283635³	STRING (score=.993)
CD4	ENSP00000011653³	STRING (score=.984)
CD3G	ENSP00000292144³	STRING (score=.955)
CD3D	ENSP00000300692³	STRING (score=.95)

About this table

1 Gene Ontology (GO) biological process term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0006955	immune response	NAS	2426193

About this table

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for TRB@
10/12 Novoseek chemical compound relationships for TRB@ gene (see all 12 )

Compound	Score	Articles	PubMed IDs for Articles with Shared Sentences (# sentences)
bgl ii	51.20	3	1979939 (1), 7567936 (1), 1679291 (1)
enterotoxin	37.81	3	8486394 (1), 8613483 (1), 9500785 (1)
bamhi	27.24	1	7567936 (1)
hind iii	24.79	2	7567936 (1), 11422051 (1)
ecori	24.34	1	7567936 (1)
oligonucleotide	7.15	3	7823247 (1), 8599453 (1), 1848269 (1)
calcium	0.48	1	2052609 (1)
polyacrylamide	0.00	1	8882133 (1)
benzene	0.00	2	14673790 (1), 15036117 (1)
threonine	0.00	1	12680588 (1)

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2 PharmGKB drug compound relationships for TRB@ gene

Drug compound	PharmGKB Relations	PubMed IDs for articles supporting these relationships
mercaptopurine	PD FA GN	12704389
methotrexate	PD FA GN	12704389

About this table

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene)
About This Section

Inhib. RNA:		Browse Invitrogen for RNAi
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

Browse Origene for 29mer shRNA kit in GFP-retroviral vector

Browse siRNA at Sigma-Aldrich

Browse shRNA at Sigma-Aldrich

Explore Sigma-Aldrich super-pooled esiRNAs

OriGene untagged cDNA clone in CMV expression vector: XM_114547

highest scoring ESTs for TRB@:

AA356166 AA357176 AA505898 AA618254 AA618352 AA702736 AA716449 AA719216 AA906875 AA969212

GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:

ENST00000390382

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

TRB@ expression in normal and diseased human tissues

¹ / ² / ³

8 probe-sets matching TRB@ gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
68318_at*²^{, 3}	U95-E	2	1.00	0.50	1.00	1.00	AI066580	0.40	0.33	0.37	1
31563_at*²^{, 3}	U95-A	30	1.00	0.27	-0.66	0.32	U03115	0.20	0.50	0.38	1
240766_at*²^{, 3}	U133-B	2	1.00	0.50	--	--	AI066580	0.40	0.33	0.37	1
217060_at*²^{, 3}	U133-A	30	1.00	0.29	--	--	U03115	0.20	0.50	0.38	1
240102_at*²^{, 3}	U133-B	1	0.82	1.00	--	--	AW024095	0.20	0.50	0.38	1
240766_at*²	U133Plus2	2	1.00	0.50	--	--	--	--	--	--	--
217060_at*²	U133Plus2	30	1.00	0.29	--	--	--	--	--	--	--
240102_at*²	U133Plus2	1	0.82	1.00	--	--	--	--	--	--	--

About this table

Data from

(Publications) and GNF BioGPS
About these images
About these images

CGAP SAGE TAG: --

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for TRB@ gene from 1 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
mouse (Mus musculus)	Tcrb⁵	6 (20.50 cM)	T-cell receptor beta chain	--	X00441

About this table Species with no ortholog for TRB@

ENSEMBL Gene Tree for TRB@

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

Pseudogenes

5 related pseudogenes

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 186930

10/93 Novoseek disease relationships for TRB@ gene (see all 93 )

Disease	Score	Articles	PubMed IDs for Articles with Shared Sentences (# sentences)
lymphoma t-cell	76.06	9	2154349 (2), 18952689 (1), 8100721 (1), 2163138 (1) (see all 8)
granulomatous slack skin	70.88	1	1316105 (1)
lymphoma t-cell cutaneous	69.86	9	16741518 (2), 1836348 (1), 12682631 (1), 2153627 (1) (see all 8)
lymphoma t-cell peripheral	65.91	1	16237215 (1)
lymphoma	65.15	15	2207314 (1), 8231259 (1), 8160632 (1), 9723588 (1) (see all 14)
sezary syndrome	64.67	3	7492785 (1), 1848269 (1), 16741518 (1)
lymphoma large cell	62.19	4	2169708 (1), 1493464 (1), 8396607 (1), 7505507 (1)
lymphoproliferative disorders	61.14	1	1953508 (1)
lymphocytosis	60.79	3	7890378 (1), 9519776 (1), 1695480 (1)
mycosis fungoides	59.18	7	8396607 (1), 2036034 (1), 1731519 (1), 1456753 (1) (see all 6)

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1 PharmGKB disease relationship for TRB@ gene

Disease	PharmGKB Relations	PubMed IDs for articles supporting these relationships
Leukemia, Lymphocytic, Acute, L1	PD FA GN	12086872 12704389 12730115

About this table

Human Gene Mutation Database: TRB@
Genetic Association Database: TRB@
Human Genome Epidemiology Navigator: TRB@ (14 documents)

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via ¹Novoseek, ²HGNC, ³Entrez Gene, ⁴UniProtKB/Swiss-Prot, ⁵UniProtKB/TrEMBL, ⁶GAD, and/or ⁷PharmGKB)
About This Section

10/347 PubMed articles for TRB@ gene (see all 347 ):

Analysis of the insertion/deletion related polymorphism within T cell antigen receptor beta variable genes in primary Sjogren's syndrome. (PubMed id 15708895)^{1, 3, 6} Lawson C.A....Boylston A.W. (2005)
Helicobacter pylori infection: CagA-specific antibodies are associated with clinical outcome, but not with HLA-class II polymorphisms of the host. (PubMed id 12635936)^{3, 6} Kunstmann E....Epplen J.T. (2003)
Analysis of two T-cell receptor BV gene segment polymorphisms in caucasoid Brazilian patients with rheumatoid arthritis. (PubMed id 14687707)^{3, 6} Dresch C....Chies J.A. (2003)
T-cell receptor polymorphism in primary biliary cirrhosis. (PubMed id 14621425)^{3, 6} Selmi C....Podda M. (2003)
Malaria is not responsible for the selection of TCR beta-subunit variable gene haplotypes in The Gambia. (PubMed id 11862389)^{3, 6} Donaldson I.J....Boylston A.W. (2002)
Unique TCR beta-subunit variable gene haplotypes in Africans. (PubMed id 11862388)^{3, 6} Donaldson I.J....Boylston A.W. (2002)
TCRBV3S1 and TCRBV18 gene segment polymorphisms in Brazilian Caucasoid and Black populations. (PubMed id 11841483)^{3, 6} Dresch C....Chies J.A. (2002)
Association study of proposed candidate genes/regions in a population of Spanish asthmatics. (PubMed id 11142503)^{3, 6} Soriano J.B....Lazaro C. (2000)
The complete primary structure of the T-cell receptor genes from an alloreactive cytotoxic human T-lymphocyte clone. (PubMed id 2426193)^{3, 4} Leiden J.M.... Strominger J.L. (1986)
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)^{2, 3} Isobe M....Croce C.M. (1985)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		AND	OR
Aliases
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, and/or H-InvDB)
About This Section

Entrez Gene: 6957	HGNC: 12155	Ensembl:ENSG00000211735	euGenes: HUgn6957	ECgene: TRB@
H-InvDB: TRB@

(According to HUGE)
About This Section

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Name	Description
ATLAS Chromosomes in Cancer entry for TRB@	Genetics and Cytogenetics in Oncology and Haematology
IMGT entry for TRB@	The international ImMunoGeneTics information system® specializing in Immunoglobulins (IG), T cell receptors (TR), Major Histocompatibility Complex (MHC) and related proteins of the immune system (RPI) of human and other vertebrate species.

Licensable Technologies for TRB@
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section

Products for TRB@:

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for TRB@-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Browse siRNAs at Sigma-Aldrich		Browse antibodies at Sigma-Aldrich
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	Recombinant & Natural Proteins

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	Recombinant Proteins (TCR alpha + TCR beta, TCR beta, TCR V beta 17)
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TRB@ Gene

gene cluster GIFtS: 43

Aliases &
Descriptions
for TRB@

Summaries
for TRB@

Genomic Location
for TRB@

Proteins
for TRB@

Protein Domains/
Families
for TRB@

Gene Function
for TRB@

Pathways & Interactions
for TRB@

Drugs & Compounds
for TRB@

Transcripts
for TRB@

Expression
for TRB@

Orthologs
for TRB@

Paralogs
for TRB@

SNPs/Variants
for TRB@

Disorders & Mutations
for TRB@

Medical News
for TRB@

Publications
for TRB@

Search for TRB@

Genome Databases showing TRB@

Other Databases showing TRB@

Specialized Databases showing TRB@

Licensable Technologies
for TRB@

Services
for TRB@

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

TRB@ Gene

gene cluster GIFtS: 43

Aliases & Descriptionsfor TRB@

Summariesfor TRB@

Genomic Locationfor TRB@

Proteinsfor TRB@

Protein Domains/Familiesfor TRB@

Gene Functionfor TRB@

Pathways & Interactionsfor TRB@

Drugs & Compoundsfor TRB@

Transcriptsfor TRB@

Expression for TRB@

Orthologsfor TRB@

Paralogsfor TRB@

SNPs/Variantsfor TRB@

Disorders & Mutationsfor TRB@

Medical Newsfor TRB@

Publicationsfor TRB@

Search for TRB@

Genome Databases showing TRB@

Other Databases showing TRB@

Specialized Databases showing TRB@

Licensable Technologiesfor TRB@

Servicesfor TRB@

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for TRB@

Summaries
for TRB@

Genomic Location
for TRB@

Proteins
for TRB@

Protein Domains/
Families
for TRB@

Gene Function
for TRB@

Pathways & Interactions
for TRB@

Drugs & Compounds
for TRB@

Transcripts
for TRB@

Expression
for TRB@

Orthologs
for TRB@

Paralogs
for TRB@

SNPs/Variants
for TRB@

Disorders & Mutations
for TRB@

Medical News
for TRB@

Publications
for TRB@

Licensable Technologies
for TRB@

Services
for TRB@