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TRBV4-2 Gene

protein-coding   GIFtS: 18
GCID: GC07P142806

T Cell Receptor Beta Variable 4-2

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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 Variable 4-21 2
TCRBV7S3A2T2 4
TCRBV4S22
TCRBV7S3A22
TRBV422

External Ids:    HGNC: 122161   Entrez Gene: 286162   Ensembl: ENSG000002117457   UniProtKB: A0A5394   

Export aliases for TRBV4-2 gene to outside databases

Previous GC identifers: GC07U990239 GC07P141375 GC07P141453 GC07P141454 GC07P141498 GC07P141692 GC07P142166 GC07P142188 GC07P142310 GC07P142383 GC07P142412 GC07P142465 GC07P142585 GC07P142676 GC07P142744


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TRBV4-2 Gene:
TRBV4-2 (T cell receptor beta variable 4-2) is a protein-coding gene. An important paralog of this gene is TRBV11-1.


(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 TRBV4-2
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRBV4-2


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

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

TRBV4-2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRBV4-2 gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07P142806:  view genomic region     (about GC identifiers)

Start:
142,045,252 bp from pter      End:
142,045,816 bp from pter
Size:
565 bases      Orientation:
plus strand

2 alternative locations:
Chr7+,CRA_TCAG 141,383,565-141,384,018      Chr7+,NW_003571040 487,514-487,967     

(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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/TrEMBL: A0A539 (See protein sequence)
Recommended Name: V_segment translation product  
Size: 114 amino acids; 12890 Da

Explore proteomics data for TRBV4-2 at MOPED


See TRBV4-2 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


ENSEMBL proteins: 
 ENSP00000374915  

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(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

3 InterPro protein domains:
 IPR007110 Ig-like_dom
 IPR013783 Ig-like_fold
 IPR013106 Ig_V-set

Graphical View of Domain Structure for InterPro Entry A0A539

ProtoNet protein and cluster: A0A539


Find genes that share domains with TRBV4-2           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding ----
     
Find genes that share ontologies with TRBV4-2           About GenesLikeMe


Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for TRBV4-2

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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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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TRBV4-2
Interactions:

    Search GeneGlobe Interaction Network for TRBV4-2

(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 Tocris compounds for TRBV4-2



(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,
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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000390392(uc003vxp.4)
miRNA
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4 AceView cDNA sequences:

BV171788 AA917779 BV199373 AI243564 

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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TRBV4-2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
TRBV4-2 Expression
About this image

TRBV4-2 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

TRBV4-2 Protein Expression
    Custom PCR Arrays for TRBV4-2
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In Situ
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(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 chordates.

Orthologs for TRBV4-2 gene from Selected species (see all 6)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
dog
(Canis familiaris)
Mammalia --
Uncharacterized protein
57(a)
1 → many
16(6944024-6945966)
chicken
(Gallus gallus)
Aves --
--
(see all 3)
Uncharacterized protein
(see all 3)
26(a)
20(a)
(see all 3)
many ↔ many
many ↔ many
(see all 3)
1(77587818-77601499)
1(77619362-77619907)
lizard
(Anolis carolinensis)
Reptilia --
--
Uncharacterized protein
30(a)
21(a)
many ↔ many
many ↔ many
GL343499.1(502420-503182)
GL343499.1(489244-493799)


ENSEMBL Gene Tree for TRBV4-2 (if available)
TreeFam Gene Tree for TRBV4-2 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for TRBV4-2 gene
TRBV11-12  TRBV192  TRBV92  TRBV3-12  TRBV7-32  TRBV6-52  TRBV21OR9-22  TRBV7-42  
TRBV6-62  TRBV25-12  TRBV5-12  TRBV23OR9-22  TRBV4-12  TRBV7-12  TRBV6-82  TRBV5-72  
TRBV10-12  TRBV6-12  TRBV7-72  TRBV23-12  TRBV5-32  TRBV282  TRBV22  TRBV6-72  
TRBV6-42  TRBV272  TRBV5-52  TRBV5-62  TRBV7-62  TRBV10-22  TRBV7-82  TRBV24-12  
TRBV6-92  TRBV5-42  

Find genes that share paralogs with TRBV4-2           About GenesLikeMe


2 Pseudogenes.org Pseudogenes for TRBV4-2
PGOHUM00000233603 PGOHUM00000261642


(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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Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing TRBV4-2
DNA2.0 Custom Variant and Variant Library Synthesis for TRBV4-2

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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  --

(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 TRBV4-2 gene integrated from 10 sources:
(articles sorted by number of sources associating them with TRBV4-2)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The complete 685-kilobase DNA sequence of the human beta T cell receptor locus. (PubMed id 8650574)1, 3 Rowen L.... Hood L. (Science 1996)
  2. A genetically determined insertion/deletion related polymorphism in human T cell receptor beta chain (TCRB) includes functional variable gene segments. (PubMed id 7931073)1 Zhao T.M....Robinson M.A. (J. Exp. Med. 1994)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
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, Kegg, and/or H-InvDB)
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Entrez Gene: 28616 HGNC: 12216 AceView: TRBV4-2 Ensembl:ENSG00000211745 euGenes: HUgn28616
ECgene: TRBV4-2 H-InvDB: TRBV4-2

(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 TRBV4-2 Pharmacogenomics, SNPs, Pathways
IMGT entry for TRBV4-2 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.

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for TRBV4-2 gene:
Search GeneIP for patents involving TRBV4-2

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, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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