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TRA Gene

protein-coding   GIFtS: 23
GCID: GC14P022093

T Cell Receptor Alpha Locus


(Previous symbols: TCRA, TRA@)
  See TRA-related diseases
at  

(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 Alpha Locus1 2     TRAC2
TCRA1 2     T-Cell Antigen Receptor, Alpha Polypeptide2
TRA@1 2     T-Cell Receptor, Alpha (V,D,J,C)2
IMD72     SSR45
TCRD2     TRAPD5

External Ids:    HGNC: 120271   Entrez Gene: 69552   OMIM: 3000905   

Export aliases for TRA gene to outside databases


(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 TRA Gene:
TRA (T cell receptor alpha locus) is a protein-coding gene. Diseases associated with TRA include immunodeficiency 7, tcr-alpha/beta deficient, and precursor t-cell acute lymphoblastic leukemia.

Gene Wiki entry for TRA (TRA@) Gene


(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 TRA
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRA promoter sequence
   Search Chromatin IP Primers for TRA

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


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

Entrez Gene cytogenetic band: 14q11.2   HGNC cytogenetic band: 14q11.2

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

GeneLoc information about chromosome 14         GeneLoc Exon Structure

GeneLoc location for GC14P022093:  view genomic region     (about GC identifiers)

Start:
22,090,057 bp from pter      End:
23,021,075 bp from pter
Size:
931,019 bases      Orientation:
plus strand
TRA has overlapping exons with:
TRAV34 TRAV31 TRAV27

(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., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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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:
TRAS: T cell receptors / TRA 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, 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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Animal Models:
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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 TRA 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 TRA (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 TRA
    Cytokines and Inflammatory Response
TCR Signaling Pathway


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Interactions:

    Search GeneGlobe Interaction Network for TRA

(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 TRA

3 Novoseek inferred chemical compound relationships for TRA gene    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
bamhi 23.4 1 2022018 (1)
ionomycin 5.79 1 8566023 (1)
guanine 0 1 1569957 (1)



Find genes that share compounds with TRA           About GenesLikeMe



(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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miRNA
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Browse SwitchGear 3'UTR luciferase reporter plasmids
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: --

TRA Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for TRA
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRA

(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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  --

(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): TRA

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

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 300090    OMIM disorders: --

6 diseases for TRA:    
About MalaCards
immunodeficiency 7, tcr-alpha/beta deficient    precursor t-cell acute lymphoblastic leukemia    felty's syndrome    lysinuric protein intolerance
hypersomnia    myelodysplastic syndromes


Find genes that share disorders with TRA           About GenesLikeMe

Selected Novoseek inferred disease relationships for TRA gene (see all 16)    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
t-all 56.7 12 10361104 (3), 15668700 (2)
colitis ulcerative 31.4 3 7821111 (1), 1971608 (1), 8760824 (1)
multiple sclerosis 28.1 6 1346471 (1), 1387654 (1), 7931419 (1), 1348852 (1) (see all 6)
diabetes mellitus insulin-dependent 18.7 1 9098400 (1)
lupus nephritis 11.8 1 9746855 (1)
rheumatoid arthritis 8.52 1 9002046 (1)
inflammatory bowel diseases 6.75 2 8760824 (1), 8642289 (1)
lymphoma 5.99 2 8279454 (1), 1853936 (1)
leukemia 4.47 4 1648373 (1), 11054065 (1), 1569404 (1)
chromosomal aberrations 4.16 1 15668700 (1)


Export disorders for TRA 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 TRA gene, integrated from 10 sources (see all 223):
(articles sorted by number of sources associating them with TRA)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The chromosomal location of T-cell receptor genes and a T cell rearranging gene: possible correlation with specific translocations in human T cell leukaemia. (PubMed id 3875483)1, 3 Rabbitts T.H.... Goodfellow P.N. (EMBO J. 1985)
  2. Locus of the alpha-chain of the T-cell receptor is split by chromosome translocation in T-cell leukemias. (PubMed id 3875152)1, 3 Erikson J....Croce C.M. (Science 1985)
  3. Pre T-cell receptor alpha (pTalpha) expression patterns and functional analysis in human T-cell lymphoblastic leukemia. (PubMed id 20208138)1, 9 Ivanyi P....Franzke A. (Cell. Oncol. 2010)
  4. Gene-specific signal joint modifications during V(D)J recombination of TCRAD locus genes in murine and human thymocytes. (PubMed id 17015149)1, 9 Touvrey C....CandAcias S.M. (Immunobiology 2006)
  5. Endoplasmic reticulum-associated ubiquitin-conjugating enzyme Ube2j1 is a novel substrate of MK2 (MAPKAP kinase-2) involved in MK2-mediated TNFI+ production. (PubMed id 24020373)1 Menon M.B....Gaestel M. (Biochem. J. 2013)
  6. Multi-cistronic vector encoding optimized safety switch for adoptive therapy with T-cell receptor-modified T cells. (PubMed id 23364317)1 van Loenen M.M....Heemskerk M.H. (Gene Ther. 2013)
  7. Human CD3I^, but not CD3I', haploinsufficiency differentially impairs I^I' versus I+I^ surface TCR expression. (PubMed id 23336327)1 MuA+oz-Ruiz M....Regueiro J.R. (BMC Immunol. 2013)
  8. Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan. (PubMed id 23648065)1 Low S.K....Nakamura Y. (Cancer Sci. 2013)
  9. Premature cell senescence and T cell receptor-independent activation of CD8+ T cells in juvenile idiopathic arthritis. (PubMed id 23686519)1 Dvergsten J.A....Vallejo A.N. (Arthritis Rheum. 2013)
  10. Common variants in left/right asymmetry genes and pathways are associated with relative hand skill. (PubMed id 24068947)1 Brandler W.M....Paracchini S. (PLoS Genet. 2013)

(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: 6955 HGNC: 12027 euGenes: HUgn6955 ECgene: TRA H-InvDB: TRA

(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 TRA 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 TRA gene:
Search GeneIP for patents involving TRA

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, eBioscience, 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
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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