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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TRA Gene

protein-coding   GIFtS: 24
GCID: GC14P022093

T Cell Receptor Alpha Locus


(Previous symbols: TCRA, TRA@)
  Search for TRA
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     T-Cell Antigen Receptor, Alpha Polypeptide2
TCRA1 2     T-Cell Receptor, Alpha (V,D,J,C)2
TRA@1 2     ARMD75
IMD72     HTRA15
TCRD2     PRSS115
TRAC2     

External Ids:    HGNC: 120271   Entrez Gene: 69552   OMIM: 6021945   

Export aliases for TRA gene to outside databases


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

GeneCards Summary for TRA Gene: 
TRA (T cell receptor alpha locus) is a protein-coding gene. Among its related super-pathways are Immune response CD28 signaling and Signal transduction Erk Interactions- Inhibition of Erk.

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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for TRA
         Other transcription factors

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

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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:
ORGUL069913 TRAV39 TRAV31

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, 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)
About This Section
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,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

Animal Models:
   inGenious Targeting Laboratory - Custom generated mouse model solutions for TRA 
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miRNA
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(Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
About This Section

SuperPaths for TRA About   (see all 17)                                                                                              See pathways by source

SuperPathContained pathways About
1Immune response CD28 signaling
Immune response CD28 signaling0.92
2Signal transduction Erk Interactions: Inhibition of Erk
Signal transduction Erk Interactions: Inhibition of Erk0.92
3Immune response Antigen presentation by MHC class I
Immune response Antigen presentation by MHC class I0.92
4Signal transduction IP3 signaling
Signal transduction IP3 signaling0.92
5Immune response ICOS pathway in T-helper cell
Immune response ICOS pathway in T-helper cell0.91

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways

5/15 EMD Millipore Pathways for TRA (see all 15)
    Immune response Antigen presentation by MHC class II
Signal transduction IP3 signaling
Immune response NFAT in immune response
Immune response Antigen presentation by MHC class I
Immune response CD28 signaling


5/15 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



TRA for pathways           About GeneDecksing

Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRA

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

TRA for compounds           About GeneDecksing

Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

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)

Search CenterWatch for drugs/clinical trials and news about TRA

(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,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

miRNA
Products:
     
QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TRA
Search QIAGEN for miScript miRNA Assays for microRNAs that regulate TRA
SwitchGear 3'UTR luciferase reporter plasmidTRA 3' UTR sequence
Inhib. RNA
Products:
     
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Browse OriGene RNAi
Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRA
Clone
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Primer
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  Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRA
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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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

    SABiosciences Custom PCR Arrays for TRA
Primer
Products:
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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)
About This Section
  --

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

(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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

Locus Specific Mutation Databases (LSDB): TRA
SABiosciences Cancer Mutation 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, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

TRA for disorders           About MalaCards
OMIM gene information: 602194   
OMIM disorders: 610149  

TRA for disorders           About GeneDecksing

10/16 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)
About This Section

PubMed articles for TRA gene, integrated from 9 sources (see all 214):
(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. (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. (1985)
  3. Pre T-cell receptor alpha (pTalpha) expression patter ns and functional analysis in human T-cell lymphoblastic leukemia. (PubMed id 20208138)1, 9 Ivanyi P....Franzke A. (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....Candeias S.M. (2006)
  5. Human CD3g, but not CD3d, haploinsufficiency different ially impairs gd versus ab surface TCR expression. (PubMed id 23336327)1 Munoz-Ruiz M....Regueiro J.R. (2013)
  6. Combined TCRG and TCRA TREC analysis reveals increased peripheral T-lymphocyte but constant intra-thymic proliferative history upon ag eing. (PubMed id 23000520)1 van der Weerd K....Staal F.J. (2013)
  7. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. (PubMed id 23251661)1 Comuzzie A.G....Butte N.F. (2012)
  8. A GxxxG-like motif within HIV-1 fusion peptide is crit ical to its immunosuppressant activity, structure, and interaction with the tran smembrane domain of the T-cell receptor. (PubMed id 22872636)1 Faingold O....Shai Y. (2012)
  9. Minimal conformational plasticity enables TCR cross-re activity to different MHC class II heterodimers. (PubMed id 22953050)1 Holland C.J....Cole D.K. (2012)
  10. Effect of granulocyte colony-stimulating factor mobili zation on the expression patterns, clonality and signal transduction of TRAV and TRBV repertoire. (PubMed id 22658922)1 Xuan L....Liu Q. (2012)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 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)
About This Section
Entrez Gene: 6955 HGNC: 12027 euGenes: HUgn6955 ECgene: TRA H-InvDB: TRA

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
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.)
About This Section
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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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