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TRA@ Gene

gene cluster   GIFtS: 44

GC14P021160
T cell receptor alpha locus
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: TCRA)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
FLJ22602 2
MGC117436 2
MGC22624 2
MGC23964 2
MGC71411 2
TCRA 2
TCRD 2
TRA 1, 2
Descriptions
T cell receptor alpha locus 2
T-cell antigen receptor, alpha polypeptide 2
T-cell receptor, alpha (V,D,J,C) 2
External Ids
HGNC: 120271
Entrez Gene: 69552
UniProtKB: P018483
Ensembl: ENSG000002118897
Search outside databases for aliases for TRA@ gene

Previous GC identifers: GC14U990056 GC14P020456

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Gene Wiki entry for TRA@
(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)
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Genomic View:
UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 14q11.2   Ensembl 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)

GeneLoc gene densities for chromosome 14         GeneLoc Exon Structure

GeneLoc location for GC14P021160:     (about GC identifiers)

Start:
21,159,897 bp from pter
End:
22,090,915 bp from pter
Size:
931,019 bases
Orientation:
plus strand

1 alternative location:
Chr14+ 22,001,764-22,003,154     
(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: TCA_HUMAN, P01848 (See protein sequence)
Recommended Name: T-cell receptor alpha chain C region  
Size: 142 amino acids; 15928 Da
Subcellular location: Membrane; Single-pass membrane protein (Potential)
Miscellaneous: This clone was isolated from a human leukemic T-cell line, Jurkat
Miscellaneous: This alpha chain C region shows sequence homology to its beta chain counterpart
Miscellaneous: The gene corresponding to this mRNA is rearranged specifically in T-cells; its
organization is similar to an Ig gene, with V, D, J, and C regions
PDB structures from and Proteopedia :
1KGC (3D)    1MI5 (3D)    1OGA (3D)    1QRN (3D)    1YMM (3D)    1ZGL (3D)    2AK4 (3D)    2BNQ (3D)    
2BNR (3D)    2BNU (3D)    2ESV (3D)    2EYR (3D)    2EYS (3D)    2EYT (3D)    2F53 (3D)    2F54 (3D)    
2GJ6 (3D)    2IAL (3D)    2IAM (3D)    2IAN (3D)    2P5E (3D)    2P5W (3D)    2PO6 (3D)    2PYE (3D)    
2PYF (3D)    2VLJ (3D)    2VLK (3D)    2VLM (3D)    2VLR (3D)    3DX9 (3D)    3DXA (3D)    3FFC (3D)    



ENSEMBL proteins: 
ENSP00000374979 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
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 alpha)
Human Recombinant Proteins from Abnova (TRA@)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005886 plasma membrane EXP11048639 11827988 15489916 17652306
GO:0005887 integral to plasma membrane NAS--
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Antibodies for TRA@: 
Browse Antibodies Central at Invitrogen
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 alpha), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (TRA@)
Novus Biologicals Antibodies for TRA@

Assays for TRA@: 
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)
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2 InterPro domains/families:
 IPR015370 DUF1968
 IPR013783 Ig-like_fold


   GeneDecks  TRA@ for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P01848

ProtoNet protein and cluster: P01848

(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
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
                Browse Origene for 29mer shRNA kit in GFP-retroviral vector

              Applied Biosystems Silencer® siRNAs for TRA@

              Browse siRNA at Sigma-Aldrich  
                     Browse shRNA at Sigma-Aldrich  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for TRA@
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
               OriGene untagged cDNA clones in CMV expression vector (see all 4): BC020840 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                Browse Origene genome-wide validated SYBR primer pairs

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

GO IDQualified GO termEvidencePubMed IDs
GO:0004872 receptor activity IEA--
GO:0005515 protein binding IPI12429093
GO:0042287 MHC protein binding NAS--
GO:0042605 peptide antigen binding NAS--
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(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.)
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5/15 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

   GeneDecks  TRA@ for the pathways selected above  
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5/51 Interacting proteins for TRA@ (P018481, 2 ENSP000003749793) via UniProtKB, MINT, and/or STRING (see all 51 )
InteractantInteraction Details
GeneCardExternal ID(s)
TRBV19P018501, 2, ENSP000003749253EBI-1034847, EBI-1034839 MINT-25097 STRING (score=.998)
HLA-CENSP000003654123STRING (score=.96) STRING (score=.899)
TRBC1P018501, 2EBI-1034847, EBI-1034839 MINT-25097 EBI-1034847, EBI-1034839 MINT-25097
TRBC1P018501, 2EBI-1034847, EBI-1034839 MINT-25097 EBI-1034847, EBI-1034839 MINT-25097
ENSG00000206503ENSP000003659993STRING (score=.999)
TRBV7-2ENSP000003749273STRING (score=.999)
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1 Gene Ontology (GO) biological process term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006968 cellular defense response NAS--
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 TRA@
2 Novoseek chemical compound relationships for TRA@ gene
Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
bamhi 24.35 1 2022018 (1)
ionomycin 6.81 1 8566023 (1)
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2 PharmGKB drug compound relationships for TRA@ gene
Drug compound PharmGKB Relations PubMed IDs for articles supporting these relationships
mercaptopurinePD  FA  GN  12704389
methotrexatePD  FA  GN  12704389
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(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 clones in CMV expression vector (see all 4): BC020840 

highest scoring ESTs for TRA@:

L02424 AF018170 AW802679 AW869039 BX377056 BX643584 CD707476 DA074328 DB115704 DB165292 


GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:
ENST00000390537  
(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 )
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TRA@ expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for TRA@

1 / 2 / 3

27 probe-sets matching TRA@ gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
1110_at2, 3 U95-A 2 1.00 0.50 0.99 1.15 M21624 0.60 0.38 0.50 2
1106_s_at2, 3 U95-A 5 1.00 0.20 0.98 1.42 M12959 0.40 0.60 0.51 1
432_s_at2, 3 U95-A 6 1.00 0.19 0.97 0.95 X02883 0.20 0.20 0.20 1

31710_at2, 3 U95-A 8 0.94 0.34 0.88 0.51 AE000659 0.20 0.01 0.14 1

217143_s_at2, 3 U133-A 2 1.00 0.50 -- -- X06557 0.40 0.34 0.37 1

217394_at2, 3 U133-A 2 1.00 0.50 -- -- AE000659 0.20 0.01 0.14 1

234849_at2, 3 U133-B 3 1.00 0.48 -- -- AE000659 0.20 0.01 0.14 1

216191_s_at2, 3 U133-A 4 1.00 0.43 -- -- X72501 0.40 0.36 0.38 1

209671_x_at2, 3 U133-A 7 1.00 0.26 -- -- M12423 0.60 0.67 0.64 1

209670_at2, 3 U133-A 5 1.00 0.20 -- -- M12959 0.40 0.60 0.51 1

211902_x_at2, 3 U133-A 9 0.91 0.24 -- -- L34703 0.40 0.51 0.46 1

217412_at2, 3 U133-A 4 0.82 0.36 -- -- AE000659 0.20 0.01 0.14 1

210972_x_at2, 3 U133-A 7 0.82 0.18 -- -- M15565 0.60 0.67 0.64 1

215540_at2, 3 U133-A 3 0.73 0.50 -- -- AW950865 0.40 0.34 0.37 1

215524_x_at2, 3 U133-A 9 0.73 0.27 -- -- AW966434 0.20 0.01 0.14 3

217143_s_at2 U133Plus2 2 1.00 0.50 -- -- -- -- -- -- --

217394_at2 U133Plus2 2 1.00 0.50 -- -- -- -- -- -- --

234849_at2 U133Plus2 3 1.00 0.48 -- -- -- -- -- -- --

216191_s_at2 U133Plus2 4 1.00 0.43 -- -- -- -- -- -- --

209671_x_at2 U133Plus2 7 1.00 0.26 -- -- -- -- -- -- --

209670_at2 U133Plus2 5 1.00 0.20 -- -- -- -- -- -- --

211902_x_at2 U133Plus2 9 0.91 0.24 -- -- -- -- -- -- --

217412_at2 U133Plus2 4 0.82 0.36 -- -- -- -- -- -- --

210972_x_at2 U133Plus2 7 0.82 0.18 -- -- -- -- -- -- --

215540_at2 U133Plus2 3 0.73 0.50 -- -- -- -- -- -- --

215524_x_at2 U133Plus2 9 0.73 0.27 -- -- -- -- -- -- --

1562082_at*2 U133Plus2 2 1.00 0.50 -- -- -- -- -- -- --
GeneDecks  TRA@ for binary patterns associated with the probe-sets selected above  
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Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: --

Expression variation in blood from EXPOLDB for TRA@

(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)
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ENSEMBL Gene Tree for TRA@
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
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  --
(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
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  --
(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: 186880

10/15 Novoseek disease relationships for TRA@ gene (see all 15 )

Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
t-all 54.39 12 10361104 (3), 15668700 (2)
colitis ulcerative 33.15 3 7821111 (1), 1971608 (1), 8760824 (1)
multiple sclerosis 30.15 6 1346471 (1), 1387654 (1), 7931419 (1), 1348852 (1) (see all 6)
diabetes mellitus insulin-dependent 20.06 1 9098400 (1)
lupus nephritis 13.81 1 9746855 (1)
rheumatoid arthritis 10.64 1 9002046 (1)
inflammatory bowel diseases 9.20 2 8760824 (1), 8642289 (1)
chromosomal aberrations 5.72 1 15668700 (1)
lymphoma 2.16 2 8279454 (1), 1853936 (1)
leukemia 0.45 4 1648373 (1), 11054065 (1), 1569404 (1)
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1 PharmGKB disease relationship for TRA@ gene
Disease PharmGKB Relations PubMed IDs for articles supporting these relationships
Leukemia, Lymphocytic, Acute, L1PD  FA  GN  12704389
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Genetic Association Database: TRA@
Human Genome Epidemiology Navigator: TRA@ (1 document)

(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)
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10/181 PubMed articles for TRA@ gene (see all 181 ):
(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, and/or H-InvDB)
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Entrez Gene: 6955 HGNC: 12027 Ensembl:ENSG00000211889 euGenes: HUgn6955 ECgene: TRA@
H-InvDB: TRA@
(According to HUGE)
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  --
(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

NameDescription
ATLAS Chromosomes in Cancer entry for TRA@ Genetics and Cytogenetics in Oncology and Haematology
IMGT entry for TRA@ 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.
(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 TRA@:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  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 TRA@-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
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Browse shRNAs at Sigma-Aldrich Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Recombinant & Natural Proteins  

 Recombinant Proteins (TRA@)
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 Recombinant Proteins
(TCR alpha + TCR beta, TCR alpha)
 Antibodies (TCR alpha + TCR beta, TCR alpha)
 Search OriGene for TRA@
 Search Tocris compounds for TRA@




 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for TRA@

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