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TRAT1 Gene

protein-coding   GIFtS: 53

GC03P110026
T cell receptor associated transmembrane adaptor 1
(Previous name: T cell receptor interacting molecule )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: TCRIM)
Services    

Aliases &
Descriptions
for TRAT1

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section
Aliases
HSPC062 1, 2
TCRIM 2, 3
TRIM 1, 2, 3, 5
pp29/30 3
Descriptions
T cell receptor associated transmembrane adaptor 1 2
T cell receptor interacting molecule 1, 2
T-cell receptor interacting molecule 2
T-cell receptor-interacting molecule 3
External Ids
HGNC: 306981
Entrez Gene: 508522
UniProtKB: Q6PIZ93
Ensembl: ENSG000001635197
Search outside databases for aliases for TRAT1 gene

Summaries
for TRAT1

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

UniProtKB/Swiss-Prot: TRAT1_HUMAN, Q6PIZ9
Function: Stabilizes the TCR (T-cell antigen receptor)/CD3 complex at the surface of T-cells

Gene Wiki entry for TRAT1

Genomic Location
for TRAT1

(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

 Transcription factor binding sites upstream to the TRAT1 gene  

Entrez Gene cytogenetic band: 3q13   Ensembl cytogenetic band:  3q13.13   HGNC cytogenetic band: 3q13

TRAT1 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 3         GeneLoc Exon Structure

GeneLoc location for GC03P110026:     (about GC identifiers)

Start:
 110,024,321 bp from pter
End:
 110,056,404 bp from pter
Size:
 32,084 bases
Orientation:
 plus strand
RefSeq DNA sequence:
NC_000003.10  NT_005612.15  

Proteins
for TRAT1

(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)
About This Section

 UniProtKB/Swiss-Prot: TRAT1_HUMAN, Q6PIZ9 (See protein sequence)
Recommended Name: T-cell receptor-associated transmembrane adapter 1  
Size: 186 amino acids; 21211 Da
Subunit: Homodimer; disulfide-linked. Interacts with CD3Z. When phosphorylated, interacts with
PIK3R1
Subcellular location: Cell membrane; Single-pass type III membrane protein
Developmental stage: Strongly expressed in fetal thymus at weeks 17-24 of gestation. Undetectable
in bone marrow and fetal liver
Sequence caution: Sequence=AAF29034.1; Type=Frameshift; Positions=166;
Secondary accessions: Q9NZX5

Post-translational modifications:

  • Phosphorylated on tyrosines by LCK or FYN upon TCR activation1
  • View phosphorylation sites using PhosphoSite2


    • REFSEQ proteins: NP_057472.2  

    ENSEMBL proteins: 
    ENSP00000295756 


    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 (TRIM)
    Browse Abnova for Human Recombinant Proteins
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005886 plasma membrane IDA11390434
    GO:0005887 integral to plasma membrane TAS9687533
    GO:0042101 T cell receptor complex IDA11390434
    About this table

    Antibodies for TRAT1: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for TRAT1
    R&D Systems Antibodies for TRAT1 (TRIM)
    Antibodies from Abcam (TRIM), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (TRAT1)
    Novus Biologicals Antibodies for TRAT1

    Assays for TRAT1: 
    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

    Protein Domains/
    Families
    for TRAT1

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

    ProtoNet protein and cluster: Q6PIZ9

    Gene Function
    for TRAT1

    (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.)
    About This Section
    Inhib.
    RNA:    		Invitrogen RNAi Products for gene knock-down (TRAT1)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_016388

                  Applied Biosystems Silencer® siRNAs for TRAT1

                  Sigma-Aldrich siRNA for TRAT1  
                         Sigma-Aldrich shRNA Panels and shRNA for TRAT1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for TRAT1
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_016388
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_016388
                                     untagged cDNA clone in CMV expression vector: NM_016388 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_016388

    UniProtKB/Swiss-Prot: TRAT1_HUMAN, Q6PIZ9
    Function: Stabilizes the TCR (T-cell antigen receptor)/CD3 complex at the surface of T-cells

    3 MGI mutant phenotypes (inferred from 1 allele) (MGI details for Trat1):

    growth/sizehematopoietic systemimmune system

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005068 transmembrane receptor protein tyrosine kinase adaptor protein activity TAS9687533
    GO:0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity EXP12660731
    About this table

    Pathways & Interactions
    for TRAT1

    (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

    3 Invitrogen iPath™ Online BioAtlas - Pathways for TRAT1 (Maps provided by GeneGo):
     T cell receptor signaling pathway
     ICOS-ICOSL pathway in T-helper cell
     NFAT in immune response

       GeneDecks  TRAT1 for the pathways selected above  
    About GeneDecksing

    3 Millipore Pathways for TRAT1
     Immune response NFAT in immune response
     Immune response ICOS pathway in T-helper cell
     Immune response T cell receptor signaling pathway

       GeneDecks  TRAT1 for the pathways selected above  
    About GeneDecksing

    3 Sigma-Aldrich "Your Favorite Gene" Pathways for  TRAT1  (Your Favorite Gene powered by Ingenuity) 
     Inositol Phosphate Metabolism
     CTLA4 Signaling in Cytotoxic T Lymphocytes
     iCOS-iCOSL Signaling in T Helper Cells

       GeneDecks  TRAT1 for the pathways selected above  
    About GeneDecksing


    5/45 Interacting proteins for TRAT1 (ENSP000002957563) via UniProtKB, MINT, and/or STRING (see all 45 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CD247ENSP000003568343STRING (score=.995)
    CD3EENSP000003545663STRING (score=.969)
    PIK3R1ENSP000002743353STRING (score=.968)
    ZAP70ENSP000002649723STRING (score=.939)
    CD3DENSP000003006923STRING (score=.937)
    About this table

    5/7 Gene Ontology (GO) biological process terms (links to tree view) (see all 7 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001920 negative regulation of receptor recycling IDA11390434
    GO:0006955 immune response IEA--
    GO:0006968 cellular defense response TAS9687533
    GO:0007165 signal transduction TAS9687533
    GO:0050850 positive regulation of calcium-mediated signaling IDA11390434
    About this table

    Drugs & Compounds
    for TRAT1

    (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 TRAT1

    Transcripts
    for TRAT1

    (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,
    Expression Assays from Applied Biosystems)
    About This Section
    Inhib.
    RNA:    		Invitrogen RNAi Products for gene knock-down (TRAT1)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_016388

                  Sigma-Aldrich siRNA for TRAT1  
                         Sigma-Aldrich shRNA Panels and shRNA for TRAT1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_016388  

    REFSEQ mRNAs for TRAT1 gene: 

    NM_016388.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_016388  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_016388
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_016388
                                     untagged cDNA clone in CMV expression vector: NM_016388 

    Additional cDNA sequence: 

    AF161547.1 AJ224878.1 AJ240085.1 AK291991.1 BC025713.1 CR593848.1 CR623824.1 

    3 DOTS entries:

    DT.75168759  DT.120879513  DT.120879521 

    24/27 AceView cDNA sequences (see all 27 ):

    BC025713 CR623824 CR593848 BI833851 BX415345 AF161547 BX506779 AI453185 
    BX329167 NM_016388 BX414764 BI767372 BP368118 CD522032 AL558415 AV761152 
    BI490901 CD702669 CD639080 CD696498 BI909324 D31303 CD687867 CD691066 

    highest scoring ESTs for TRAT1:

    AF161547 AI445595 AI453185 AJ224878 AL558415 AL580236 BC025713 BI767372 BI833851 BI909324 

    Unigene Cluster for TRAT1:

    T cell receptor associated transmembrane adaptor 1
    Hs.138701  [show with all ESTs]
    Unigene Representative Sequence: AF161547


    GeneLoc Exon Structure

    1 Ensembl transcript including schematic representation:
    ENST00000295756  

    Expression
    for TRAT1

    (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

    TRAT1 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for TRAT1

    1 / 2 / 3

    3 probe-sets matching TRAT1 gene


    		Affymetrix
    probe-set    		 Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    		33039_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 AJ224878 0.80 1.00 0.91 1

    		217147_s_at2, 3 U133-A 1 1.00 1.00 -- -- AJ240085 0.60 1.00 0.82 1

    		217147_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: CTTATGTATG

    SOURCE GeneReport for Unigene cluster: Hs.138701

    UniProtKB/Swiss-Prot: TRAT1_HUMAN, Q6PIZ9
    Tissue specificity: Strongly expressed in thymus, and to a lesser extent in spleen, lymph node and
    peripheral blood lymphocytes. Present in T-cells and NK cells, but not B-cells (at protein level)

    Orthologs
    for TRAT1

    (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 TRAT1 gene from 5/6 species (see all 6 )
    Organism Gene Locus Description Human
    Similarity    		 NCBI accessions
    dog
    (Canis familiaris)    		 LOC4785561   -- similar to T-cell receptor interacting molecule 82.34(n)
    70.27(a)    		 478556  XM_535733.2  XP_535733.1 
    chimpanzee
    (Pan troglodytes)    		 TRAT11   -- T cell receptor associated transmembrane adaptor 1 99.28(n)
    99.46(a)    		 741922  XM_001152059.1  XP_001152059.1 
    cow
    (Bos taurus)    		 TRAT11   -- T-cell receptor-associated transmembrane adapter 1 79.35(n)
    66.3(a)    		 614942  XM_866600.2  XP_871693.2 
    rat
    (Rattus norvegicus)    		 Trat11   -- T cell receptor associated transmembrane adaptor 1 77.84(n)
    67.03(a)    		 498075  NM_001037981.1  NP_001033070.1 
    mouse
    (Mus musculus)    		 Trat11, 5 165
    		 T cell receptor associated transmembrane adaptor 11, 5 80.54(n)1
    70.27(a)1    		 776471  NM_198297.21  NP_938039.21 
     AJ2979695  AK0211555  (see all 11)
    About this table        Species with no ortholog for TRAT1

    ENSEMBL Gene Tree for TRAT1

    Paralogs
    for TRAT1

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

    		  --

    SNPs/Variants
    for TRAT1

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


    10/216 NCBI SNPs in TRAT1 are shown (see all 216 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 113)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 3 posSequenceRecsAA
    Chg    		TypeMoreRecsAllele
    freq    		PopTotal
    sample    		More
    ------------
    rs67648541,2
    		A,C,F,H110056473(+) acacgT/Ctattt 1 -- ng314Minor allele frequency- C:0.35EU EA WA 418
    rs29533391,2
    		A,C,F,H110023300(+) GGGGGA/GAGTGA 1 -- ng518Minor allele frequency- G:0.32EU EA WA 836
    rs27156941,2
    		A,C,F,H110023833(+) ACTGAT/CAAGGT 1 -- ng5116Minor allele frequency- C:0.36NS EU EA WA NA 1074
    rs27156921,2
    		A,C,F110023321(+) AAAATG/TTGTTA 1 -- ng51 tfbs39Minor allele frequency- C:0.05NS EA NA 312
    rs98798121,2
    		C,F,H110024451(+) TTCTCT/CGAAAA 1 -- ut51 ese38Minor allele frequency- C:0.13EU EA WA 822
    rs38116861,2
    		C,F,H110024004(-) CTGATG/AAGTAA 1 -- ng51 tfbs39Minor allele frequency- A:0.24EA EU WA 2322
    rs37627921,2
    		F,H110023442(+) GTTCAA/GTCACT 1 -- ng51 tfbs34Minor allele frequency- G:0.10EU EA WA 416
    rs98537091,2
    		F,H110023006(+) GAGTCC/TTCtgg 1 -- ng51 tfbs34Minor allele frequency- T:0.01EU EA WA 418
    rs14493531,2
    		C110022341(-) CCAACA/GGGAAG 1 -- ng51 trp30--------
    rs31964461,2
    		F110056107(+) ATGCTT/CATGTA 1 -- ut311Minor allele frequency- C:0.31MN 184
    About this table

    HapMap Linkage Disequilibrium images for TRAT1 (up to first 250kb)

    Disorders & Mutations
    for TRAT1

    (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: 604962

    2 Novoseek disease relationships for TRAT1 gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    cancer lung 27.11 1 10459492 (1)
    cancer 0.00 3 10459492 (2), 12797908 (1)
    About this table

    Medical News
    for TRAT1

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

    		   --

    Publications
    for TRAT1

    (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

    		10/17 PubMed articles for TRAT1 gene (see all 17 ):

    Search for TRAT1

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

     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing TRAT1

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section
    Entrez Gene: 50852 HGNC: 30698 AceView: TRIM Ensembl:ENSG00000163519 euGenes: HUgn50852
    ECgene: TRAT1 H-InvDB: TRAT1

    Other Databases showing TRAT1

    (According to HUGE)
    About This Section

    		   --

    Specialized Databases showing TRAT1

    (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

    		   --

    Licensable Technologies
    for TRAT1

    (Available from WIS Yeda, Salk, Tufts)
    About This Section

    		  --

    Services
    for TRAT1

    (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 TRAT1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
    		  Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for TRAT1-related products

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


     Predesigned and custom siRNAs for TRAT1 Antibodies for TRAT1
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for TRAT1 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Recombinant & Natural Proteins  

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     Search OriGene for TRAT1
     Search Tocris compounds for TRAT1




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for TRAT1

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