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

TRA2A Gene

protein-coding   GIFtS: 51
GCID: GC07M023544

transformer 2 alpha homolog (Drosophila)

 Explore 1 disease affiliated with
TRA2A via our new
 Human Malady Compendium 
Biological research products
for TRA2A
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Transformer 2 Alpha Homolog (Drosophila)1 2     HSU532092
AWMS11 2     Tra2alpha2
Htra-2-Alpha1     Htra-2 Alpha2
Transformer-2 Protein Homolog A2 3     Putative MAPK Activating Protein PM242
TRA2-Alpha1     Transformer-2 Alpha2
TRA-2 Alpha2 3     Transformer-2 Protein Homolog Alpha2
Tra2a1     

External Ids:    HGNC: 166451   Entrez Gene: 298962   Ensembl: ENSG000001645487   OMIM: 6027185   UniProtKB: Q135953   

Export aliases for TRA2A gene to outside databases

Previous GC identifers: GC07M023252 GC07M023286 GC07M023317 GC07M023510 GC07M023429


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

Entrez Gene summary for TRA2A:
This gene is a member of the transformer 2 homolog family and encodes a protein with two RS domains and an RRM (RNA
recognition motif) domain. This phosphorylated nuclear protein binds to specific RNA sequences and plays a role in the
regulation of pre-mRNA splicing. Several alternatively spliced transcript variants of this gene have been described;
however, the full-length nature of some of these variants has not been determined. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: TRA2A_HUMAN, Q13595
Function: Sequence-specific RNA-binding protein which participates in the control of pre-mRNA splicing

Gene Wiki entry for TRA2A


(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000007.13  NC_018918.1  NT_007819.17  NT_079592.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRA2A gene promoter:
         C/EBPbeta   Pbx1a   POU2F1   POU2F1a   POU2F1b   POU2F1c   HNF-3beta   C/EBPalpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): TRA2A promoter sequence
   Search SABiosciences Chromatin IP Primers for TRA2A

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRA2A


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

Entrez Gene cytogenetic band: 7p15.3   Ensembl cytogenetic band:  7p15.3   HGNC cytogenetic band: 7p15.3

TRA2A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRA2A gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M023544:  view genomic region     (about GC identifiers)

Start:
23,544,399 bp from pter      End:
23,571,660 bp from pter
Size:
27,262 bases      Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 23,596,242-23,623,480     

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: TRA2A_HUMAN, Q13595 (See protein sequence)
Recommended Name: Transformer-2 protein homolog alpha  
Size: 282 amino acids; 32689 Da
Subunit: Binds to A3 enhancer proteins SRp75, SRp55, SRp40 and SRp30
Subcellular location: Nucleus
Alternative splicing: 2 isoforms:  Q13595-1   Q13595-2   

Explore the universe of human proteins at neXtProt for TRA2A: NX_Q13595

Post-translational modifications:

  • Phosphorylated in the RS domains1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q13595

  • TRA2A Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_037425.1  
    ENSEMBL proteins: 
     ENSP00000297071   ENSP00000413898   ENSP00000376290   ENSP00000441116  

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    Browse Proteins at Uscn

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA9546399


    TRA2A for ontologies           About GeneDecksing



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

    TRA2A for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR000504 RRM_dom
     IPR012677 Nucleotide-bd_a/b_plait

    Graphical View of Domain Structure for InterPro Entry Q13595

    ProtoNet protein and cluster: Q13595

    1 Blocks protein family: IPB000504 RNA-binding region RNP-1 (RNA recognition motif)

    UniProtKB/Swiss-Prot: TRA2A_HUMAN, Q13595
    Similarity: Belongs to the splicing factor SR family
    Similarity: Contains 1 RRM (RNA recognition motif) domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: TRA2A_HUMAN, Q13595
    Function: Sequence-specific RNA-binding protein which participates in the control of pre-mRNA splicing

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    Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003723RNA binding IEA--
    GO:0005515protein binding ----


    TRA2A for ontologies           About GeneDecksing



    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1mRNA Splicing - Major Pathway
    Spliceosome0.31

    Pathway sources
    See GeneCards unified pathways
    Show all pathways



    1         Kegg Pathway  (Kegg details for TRA2A):
        Spliceosome


    TRA2A for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRA2A

    STRING Interaction Network Preview (showing 5 interactants - click image to see 22)

    5/41 Interacting proteins for TRA2A (Q135952, 3 ENSP000002970714) via UniProtKB, MINT, STRING, and/or I2D (see all 41)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SELENBP1Q132282, 3, ENSP000003578614MINT-8270066 I2D: score=2 STRING: ENSP00000357861
    C11orf58O001932, 3MINT-8249931 I2D: score=2 
    CDK2AP2O759562, 3MINT-8251293 I2D: score=2 
    TNNT1P138052, 3MINT-8275094 I2D: score=2 
    LOC100996657O754943, ENSP000003635734I2D: score=2 STRING: ENSP00000363573
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000398mRNA splicing, via spliceosome IDA9546399


    TRA2A for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TRA2A
    Search CenterWatch for drugs/clinical trials and news about TRA2A 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TRA2A gene: 
    NM_013293.3  

    Unigene Cluster for TRA2A:

    Transformer 2 alpha homolog (Drosophila)
    Hs.445652  [show with all ESTs]
    Unigene Representative Sequence: NM_013293
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000297071(uc003swi.3 uc011jzb.2 uc011jzc.2 uc011jzd.2)
    ENST00000497730 ENST00000475970 ENST00000482395 ENST00000486934 ENST00000494255
    ENST00000474586 ENST00000490942 ENST00000448549 ENST00000392502(uc010kuo.1)
    ENST00000538367

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    Additional cDNA sequence: 

    AB097048.1 AK298815.1 AK300565.1 AK300741.1 AK310719.1 AK311687.1 AK314801.1 BC017094.2 
    U53209.1 

    18 DOTS entries:

    DT.451629  DT.100693550  DT.121066209  DT.116073  DT.437991  DT.100800628  DT.100800621  DT.100800623 
    DT.100800626  DT.100679532  DT.100800624  DT.40132946  DT.448864  DT.100672906  DT.116074  DT.80100403 
    DT.91798077  DT.95146134 

    24/215 AceView cDNA sequences (see all 215):

    BI838386 BQ880693 BM674112 AW070693 BX645836 CB215272 BQ019833 BQ286778 
    BM837019 CR616661 BF194798 AV660622 AU117142 CA435708 BP338041 BG250879 
    AA911407 CA866155 CB139201 AU138294 AA455812 AI267910 CA941127 BU675822 

    GeneLoc Exon Structure

    5/11 Alternative Splicing Database (ASD) splice patterns (SP) for TRA2A (see all 11)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b ^ 13
    SP1:                    -     -     -     -     -     -     -                                                                                       
    SP2:                                                        -                                                                                       
    SP3:                    -     -     -           -     -     -                                                                                       
    SP4:                    -     -     -     -     -     -     -                 -     -     -                                                         
    SP5:                    -                 -     -     -     -                                                                                       


    ECgene alternative splicing isoforms for TRA2A

    (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

    TRA2A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TGGGGAAAAG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See TRA2A Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TRA2A

    SOURCE GeneReport for Unigene cluster: Hs.445652
        SABiosciences Custom PCR Arrays for TRA2A
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRA2A

    (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

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for TRA2A gene from 8/30 species (see all 30)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves TRA2A1 transformer 2 alpha homolog (Drosophila) 83.27(n)
    97.09(a)
      420618  NM_001006360.1  NP_001006360.1 
    lizard
    (Anolis carolinensis)
    Reptilia TRA2A6
    --
    96(a)
    1 ↔ 1
    6(30628013-30643114)
    African clawed frog
    (Xenopus laevis)
    Amphibia BC044990.12   -- 77.28(n)    BC044990.1 
    zebrafish
    (Danio rerio)
    Actinopterygii tra2a1 transformer-2 alpha 71.24(n)
    86.28(a)
      393388  NM_200416.1  NP_956710.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta tra26
    transformer 2
    33(a)
    1 → many
    2R(10489509-10491857)
    worm
    (Caenorhabditis elegans)
    Secernentea rsp-86
    SR Protein (splicing factor) family member (rsp-8)...
    27(a)
    1 → many
    III(11826115-11831375)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G357856
    AT1G073506
    RNA recognition motif-containing protein
    23(a)
    16(a)
    possible ortholog
    possible ortholog
    4(16952963-16955277)
    1(2257425-2260101)
    rice
    (Oryza sativa)
    Liliopsida --
    --
    (see all 4)
    RNA recognition motif family protein
    RNA recognition motif containing protein, expresse...
    (see all 4)
    6(a)
    27(a)
    (see all 4)
    possible ortholog
    possible ortholog
    (see all 4)
    Un(525073-532157)
    8(18186693-18193029)


    ENSEMBL Gene Tree for TRA2A (if available)
    TreeFam Gene Tree for TRA2A (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TRA2A gene
    RBMY1E2  RBMY1J2  RBMY1F2  RBMXL22  RBMXL32  TRA2B2  RBMY1B2  RBMXL12  
    RBMY1A12  CIRBP2  RBM32  RBMX2  RBMY1D2  
    8 SIMAP similar genes for TRA2A using alignment to 4 protein entries:     TRA2A_HUMAN (see all proteins):
    HSU53209    DKFZp686F18120    TRA2B    CIRBP    FUSIP1    RBM3
    HNRNPA1    NCL

    TRA2A for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for TRA2A
    PGOHUM00000244027 PGOHUM00000244028


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/536 NCBI SNPs in TRA2A are shown (see all 536    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1925534131,2
    --23543964(+) GGGCGC/TCTGTA 1 -- ds50010--------
    rs1878119441,2
    C--23543987(+) CGGGAA/GGCTGA 1 -- ds50010--------
    rs285979211,2
    --23544015(+) AACCCG/CGGAGG 1 -- ds50012Minor allele frequency- C:0.25NA 4
    rs1931890881,2
    C--23544077(+) AGAGCA/GAGACT 1 -- ds50010--------
    rs1836181031,2
    --23544138(+) TGCTGA/GTACTG 1 -- ds50010--------
    rs1895533981,2
    --23544140(+) CTGGTA/GCTGAA 1 -- ds50010--------
    rs1159626731,2
    F,--23544166(+) CAATTC/TGGTCT 1 -- ds50011Minor allele frequency- T:0.09WA 118
    rs1811619741,2
    --23544167(+) AATTCA/GGTCTC 1 -- ds50010--------
    rs1511770011,2
    C,--23544227(+) AAGGA-/ATAACAT 1 -- ds50010--------
    rs755458371,2
    F,--23544236(+) CATTCT/CAGTGT 1 -- ds50011Minor allele frequency- C:0.09WA 118

    HapMap Linkage Disequilibrium report for TRA2A (23544399 - 23571660 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for TRA2A: --

    SABiosciences Cancer Mutation PCR Assays
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    (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.)
    About This Section

    TRA2A for disorders           About GeneDecksing

    OMIM gene information: 602718    OMIM disorders: --

    1 disease for TRA2A:    About MalaCards
    malaria


    Export disorders for TRA2A 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 TRA2A gene, integrated from 9 sources (see all 28):
    (articles sorted by number of sources associating them with TRA2A)
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    1. A human homologue of the Drosophila sex determination factor transformer-2 has conserved splicing regulatory functions. (PubMed id 8799144)1, 2, 3, 9 Dauwalder B.... Mattox W. (1996)
    2. Human Tra2 proteins are sequence-specific activators of pre-mRNA splicing. (PubMed id 9546399)1, 2, 3 Tacke R.... Manley J.L. (1998)
    3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    5. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    6. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (2012)
    7. Expression of tumor-promoting Cyr61 is regulated by h TRA2-I^1 and acidosis. (PubMed id 21447598)1 Hirschfeld M....Stickeler E. (2011)
    8. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    9. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    10. A directed protein interaction network for investigat ing intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 29896 HGNC: 16645 AceView: TRA2A Ensembl:ENSG00000164548 euGenes: HUgn29896
    ECgene: TRA2A Kegg: 29896 H-InvDB: TRA2A

    (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 TRA2A 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 TRA2A gene:
    Search GeneIP for patents involving TRA2A

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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