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TRA2B Gene

protein-coding   GIFtS: 55
GCID: GC03M185632

Transformer 2 Beta Homolog (Drosophila)

(Previous names: splicing factor, arginine/serine-rich 10 (transformer 2...)
(Previous symbol: SFRS10)
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(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
Transformer 2 Beta Homolog (Drosophila)1 2     TRA2-BETA2
SFRS101 2 3 5     TRAN2B2
Splicing Factor, Arginine/Serine-Rich 10 (Transformer 2 Homolog,
Drosophila)1 2
     Transformer-2 Protein Homolog Beta2
Transformer-2 Protein Homolog B2 3     TRA2-beta3
TRA-2 Beta2 3     hTRA2-beta3
Htra2-beta2     Splicing Factor, Arginine/Serine-Rich 103
SRFS102     

External Ids:    HGNC: 107811   Entrez Gene: 64342   Ensembl: ENSG000001365277   OMIM: 6027195   UniProtKB: P629953   

Export aliases for TRA2B gene to outside databases

Previous GC identifers: GC03M187110 GC03M183042


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for TRA2B Gene:
This gene encodes a nuclear protein which functions as sequence-specific serine/arginine splicing factor which
plays a role in mRNA processing, splicing patterns, and gene expression. Alternative splicing results in multiple
transcript variants. (provided by RefSeq, Aug 2011)

GeneCards Summary for TRA2B Gene:
TRA2B (transformer 2 beta homolog (Drosophila)) is a protein-coding gene. GO annotations related to this gene include mRNA binding and nucleotide binding. An important paralog of this gene is RBMY1J.

UniProtKB/Swiss-Prot: TRA2B_HUMAN, P62995
Function: Sequence-specific RNA-binding protein which participates in the control of pre-mRNA splicing. Can either
activate or suppress exon inclusion. Acts additively with RBMX to promote exon 7 inclusion of the survival motor
neuron SMN2. Activates the splicing of MAPT/Tau exon 10. Alters pre-mRNA splicing patterns by antagonizing the
effects of splicing regulators, like RBMX. Binds to the AG-rich SE2 domain in the SMN exon 7 RNA. Binds to
pre-mRNA

Gene Wiki entry for TRA2B 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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RefSeq DNA sequence at NCBI GenBank:
NC_000003.11  NT_005612.17  NC_018914.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TRA2B gene promoter:
         HFH-3   p53   ATF-2   Bach2   CUTL1   POU3F2 (N-Oct-5b)   POU3F2 (N-Oct-5a)   POU3F2   FOXI1   MRF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRA2B promoter sequence
   Search Chromatin IP Primers for TRA2B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRA2B


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

Entrez Gene cytogenetic band: 3q26.2-q27   Ensembl cytogenetic band:  3q27.2   HGNC cytogenetic band: 3q26.2-q27

TRA2B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRA2B gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M185632:  view genomic region     (about GC identifiers)

Start:
185,632,356 bp from pter      End:
185,655,924 bp from pter
Size:
23,569 bases      Orientation:
minus strand

(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/Swiss-Prot: TRA2B_HUMAN, P62995 (See protein sequence)
Recommended Name: Transformer-2 protein homolog beta  
Size: 288 amino acids; 33666 Da
Subunit: Interacts with SAFB/SAFB1 (By similarity). Found in a pre-mRNA exonic splicing enhancer (ESE) complex
with TRA2B/SFRS10, SNRNP70, SNRPA1 and SRRM1. Binds to A3 enhancer proteins SFRS4, SFRS5, SFRS6 and SFRS9.
Interacts with CPSF6, RBMY1A1, RBMX, RNPS1 and phosphorylated SFRS13A
4 PDB 3D structures from and Proteopedia for TRA2B:
2CQC (3D)        2KXN (3D)        2RRA (3D)        2RRB (3D)    
Secondary accessions: B4DVK2 D3DNU3 O15449 Q15815 Q64283
Alternative splicing: 3 isoforms:  P62995-1, Q15815-1   P62995-2, Q15815-2   P62995-3, Q15815-3   

Explore the universe of human proteins at neXtProt for TRA2B: NX_P62995

Explore proteomics data for TRA2B at MOPED

Post-translational modifications: 

  • Phosphorylated in the RS domains1
  • Dimethylation at Arg-241 is probably asymmetric1
  • Ubiquitination2 at Lys140, Lys197
  • Modification sites at PhosphoSitePlus

  • See TRA2B Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001230808.1  NP_004584.1  

    ENSEMBL proteins: 
     ENSP00000416959   ENSP00000259043   ENSP00000406561   ENSP00000416887   ENSP00000371626  
     ENSP00000343857  

    TRA2B Human Recombinant Protein Products:

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    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for TRA2B 

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    LSBio Antibodies in human, mouse, rat for TRA2B

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    Browse ELISAs at Cloud-Clone Corp.
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    Search eBioscience for ELISAs for TRA2B 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    RBM: RNA binding motif (RRM) containing

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

    Graphical View of Domain Structure for InterPro Entry P62995

    ProtoNet protein and cluster: P62995

    UniProtKB/Swiss-Prot: TRA2B_HUMAN, P62995
    Similarity: Belongs to the splicing factor SR family
    Similarity: Contains 1 RRM (RNA recognition motif) domain


    Find genes that share domains with TRA2B           About GenesLikeMe


    (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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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TRA2B_HUMAN, P62995
    Function: Sequence-specific RNA-binding protein which participates in the control of pre-mRNA splicing. Can either
    activate or suppress exon inclusion. Acts additively with RBMX to promote exon 7 inclusion of the survival motor
    neuron SMN2. Activates the splicing of MAPT/Tau exon 10. Alters pre-mRNA splicing patterns by antagonizing the
    effects of splicing regulators, like RBMX. Binds to the AG-rich SE2 domain in the SMN exon 7 RNA. Binds to
    pre-mRNA

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003676nucleic acid binding ----
    GO:0003729mRNA binding IDA12165565
    GO:0005515protein binding IPI10749975
    GO:0044822poly(A) RNA binding IDA--
         
    Find genes that share ontologies with TRA2B           About GenesLikeMe


    Phenotypes:
         6 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Tra2b):
     cardiovascular system  embryogenesis  growth/size/body  homeostasis/metabolism  mortality/aging 
     normal 

    Find genes that share phenotypes with TRA2B           About GenesLikeMe

    Animal Models:
         MGI mouse knock-out Tra2btm1.2Bwir for TRA2B

       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TRA2B
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       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for TRA2B

    miRNA
    Products:
        
    miRTarBase miRNAs that target TRA2B:
    hsa-mir-378a-3p (MIRT043884), hsa-mir-17-5p (MIRT050923), hsa-mir-1 (MIRT024099), hsa-mir-30c-5p (MIRT047840), hsa-mir-10a-5p (MIRT006537), hsa-mir-196a-5p (MIRT048194), hsa-mir-10b-5p (MIRT006538)

    Block miRNA regulation of human, mouse, rat TRA2B using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate TRA2B (see all 102):
    hsa-miR-579 hsa-miR-548j hsa-miR-3607-3p hsa-miR-199a-3p hsa-miR-3653 hsa-miR-371-5p hsa-miR-4267 hsa-miR-4274
    SwitchGear 3'UTR luciferase reporter plasmidTRA2B 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat TRA2B

    Gene Editing
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    GenScript: all cDNA clones in your preferred vector: TRA2B (NM_004593)
    Sino Biological Human cDNA Clone for TRA2B
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRA2B

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRA2B


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    TRA2B_HUMAN, P62995: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol3

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA9546399

    Find genes that share ontologies with TRA2B           About GenesLikeMe


    (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 TRA2B About    
    See pathways by source

    SuperPathContained pathways About
    1mRNA Splicing - Major Pathway
    mRNA processing0.44
    2Spliceosome
    Spliceosome


    Find genes that share SuperPaths with TRA2B           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 BioSystems Pathway for TRA2B
        mRNA processing



    1 Kegg Pathway  (Kegg details for TRA2B):
        Spliceosome

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TRA2B
    Interactions:

        Search GeneGlobe Interaction Network for TRA2B

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for TRA2B (P629952, 3 ENSP000004169594) via UniProtKB, MINT, STRING, and/or I2D (see all 116)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SF3A2Q154282, 3, ENSP000002214944MINT-5205773 I2D: score=1 STRING: ENSP00000221494
    ENSG00000235068Q018603, ENSP000004050414I2D: score=1 STRING: ENSP00000405041
    ENSG00000206454Q018603I2D: score=1 
    ENSG00000229094Q018603I2D: score=1 
    ENSG00000230336Q018603I2D: score=1 
    About this table

    Gene Ontology (GO): 5 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000302response to reactive oxygen species ----
    GO:0000375RNA splicing, via transesterification reactions TAS9546399
    GO:0000381regulation of alternative mRNA splicing, via spliceosome IDA12165565
    GO:0000398mRNA splicing, via spliceosome IDA9546399
    GO:0048026positive regulation of mRNA splicing, via spliceosome IDA15009664

    Find genes that share ontologies with TRA2B           About GenesLikeMe



    (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 TRA2B



    (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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    REFSEQ mRNAs for TRA2B gene (2 alternative transcripts): 
    NM_001243879.1  NM_004593.2  

    Unigene Cluster for TRA2B:

    Transformer 2 beta homolog (Drosophila)
    Hs.533122  [show with all ESTs]
    Unigene Representative Sequence: AB209208
    16 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000453386(uc010hym.3 uc003fpv.3) ENST00000492417 ENST00000463328(uc003fpt.3)
    ENST00000259043 ENST00000414862 ENST00000466832 ENST00000487615(uc003fpu.3)
    ENST00000456380(uc003fpx.2) ENST00000382191 ENST00000465245 ENST00000485530
    ENST00000493864 ENST00000477939 ENST00000471134 ENST00000480461 ENST00000342294

    miRNA
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    Block miRNA regulation of human, mouse, rat TRA2B using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate TRA2B (see all 102):
    hsa-miR-579 hsa-miR-548j hsa-miR-3607-3p hsa-miR-199a-3p hsa-miR-3653 hsa-miR-371-5p hsa-miR-4267 hsa-miR-4274
    SwitchGear 3'UTR luciferase reporter plasmidTRA2B 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat TRA2B
    Clone
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    OriGene clones in human, mouse for TRA2B (see all 7)
    OriGene ORF clones in mouse, rat for TRA2B
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: TRA2B (NM_004593)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRA2B
    Primer
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    OriGene qPCR primer pairs and template standards for TRA2B
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      QuantiTect SYBR Green Assays in human, mouse, rat TRA2B
      QuantiFast Probe-based Assays in human, mouse, rat TRA2B

    Additional mRNA sequence: 

    AB209208.1 AK091863.1 AK094495.1 AK098191.1 AK125610.1 AK301118.1 AK308267.1 AK315632.1 
    BC000160.2 BC000451.2 BC005898.1 CR749214.1 U61267.1 U68063.1 U87836.1 

    Selected DOTS entries (see all 35):

    DT.91761815  DT.92360269  DT.100730598  DT.95233361  DT.100878524  DT.91761814  DT.100878535  DT.100878527 
    DT.97860426  DT.120855947  DT.100878536  DT.91761807  DT.120855962  DT.120855932  DT.75100088  DT.95310595 
    DT.120855981  DT.430536  DT.102833833  DT.120855959  DT.65287722  DT.91761810  DT.100673868  DT.121641868 

    Selected AceView cDNA sequences (see all 562):

    AA766721 AA605141 H06499 BQ679910 AW188678 BC000451 AA256984 AA905040 
    AU135676 BE379157 BQ224286 BU192145 BQ939898 CR608950 BU170962 BM455262 
    BI963879 AI468719 BF436526 BC000160 BQ679347 AW272537 CR603112 AA946661 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for TRA2B (see all 11)    About this scheme

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


    ECgene alternative splicing isoforms for TRA2B

    (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)
    About This Section

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    TRA2B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GATGAACTGA
    TRA2B Expression
    About this image


    TRA2B expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 21) fully expand
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Ovary (Reproductive System)    fully expand to see all 2 entries
             Ovarian Mesenchymal Stroma Cells Ovary Interstitium
             Oviduct
     
     Testis (Reproductive System)
             Leydig Cells Testis Interstitium
     
     Neural Tube (Nervous System)
             Telencephalon
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
    TRA2B Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TRA2B Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.533122

    UniProtKB/Swiss-Prot: TRA2B_HUMAN, P62995
    Tissue specificity: Highest expression in heart, skeletal muscle and pancreas. Less abundant in kidney, placenta
    and brain. Lowest expression in kidney and liver

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRA2B

    (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

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    This gene was present in the common ancestor of animals.

    Orthologs for TRA2B gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tra2b1 , 5 transformer 2 beta homolog (Drosophila)1, 5 91.67(n)1
    100(a)1
      16 (13.18 cM)5
    204621  NM_009186.41  NP_033212.11 
     222445495 
    chicken
    (Gallus gallus)
    Aves TRA2B1 transformer 2 beta homolog (Drosophila) 83.9(n)
    98.13(a)
      395403  NM_204678.1  NP_990009.1 
    lizard
    (Anolis carolinensis)
    Reptilia TRA2B6
    transformer 2 beta homolog (Drosophila)
    95(a)
    1 ↔ 1
    3(34282799-34312952)
    African clawed frog
    (Xenopus laevis)
    Amphibia LOC3984482 similar to splicing factor, arginine/serine-rich (transformer more 75.63(n)    BC044695.1 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc566122 similar to splicing factor, arginine/serine-rich 1 more 75.65(n)   394172  BC049051.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta tra26
    transformer 2
    44(a)
    1 → many
    2R(10489509-10491857)
    worm
    (Caenorhabditis elegans)
    Secernentea rsp-86
    Protein RSP-8, isoform a
    35(a)
    1 → many
    III(11826215-11831475) WBGene00004705


    ENSEMBL Gene Tree for TRA2B (if available)
    TreeFam Gene Tree for TRA2B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TRA2B gene
    RBMY1J2  RBMY1E2  RBMY1F2  RBMXL22  RBMXL32  RBMY1B2  RBMXL12  RBMY1A12  
    CIRBP2  RBM32  RBMX2  TRA2A2  RBMY1D2  
    6 SIMAP similar genes for TRA2B using alignment to 3 protein entries:     TRA2B_HUMAN (see all proteins):
    DKFZp686F18120    HSU53209    TRA2A    RBMY1A1    CIRBP    SRSF10

    Find genes that share paralogs with TRA2B           About GenesLikeMe



    (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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    Selected SNPs for TRA2B (see all 640)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs615436171,2
    C--183042746(+) CACAC-/AC/CC 
            
    CAACG
    2 -- ds50010--------
    rs1445988331,2
    C--183045281(+) CCATG-/ACACAGG 2 -- ut310--------
    rs716944441,2
    C--183045283(+) CATGA-/AC/CA 
            
    CAGGT
    4 -- ut310--------
    rs1483548471,2
    C--183063745(+) CCTTT-/GAGAGGG 2 -- int10--------
    rs1414996301,2
    C--183065114(+) TTCCC-/ACAACAGC 2 -- cds10--------
    rs2007539861,2
    --183065116(+) CCCAC-/AATAGCCT 2 -- cds10--------
    rs3777191671,2
    C--183065116(+) TCCCA-/ACACAGCC 2 -- cds10--------
    rs1466938941,2
    --185500396(+) TAGTTC/TGAGAC 2 -- ds50010--------
    rs1920280321,2
    --185500425(+) CAAACC/GCTGTC 2 -- ds50010--------
    rs106566331,2
    C--185500426(+) aaccc-/TGtgtct 2 -- ds50010--------

    HapMap Linkage Disequilibrium report for TRA2B (185632356 - 185655924 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for TRA2B:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2660289CNV Deletion23128226
    nsv461035CNV Loss19166990

    Human Gene Mutation Database (HGMD): TRA2B
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TRA2B
    DNA2.0 Custom Variant and Variant Library Synthesis for TRA2B

    (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: 602719    OMIM disorders: --


    Find genes that share disorders with TRA2B           About GenesLikeMe

    1 Novoseek inferred disease relationship for TRA2B gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tauopathies 68.6 1 12649279 (1)

    Genetic Association Database (GAD): TRA2B
    Human Genome Epidemiology (HuGE) Navigator: TRA2B (3 documents)

    Export disorders for TRA2B 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 TRA2B gene, integrated from 10 sources (see all 81):
    (articles sorted by number of sources associating them with TRA2B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Human transformer-2-beta gene (SFRS10): complete nucleotide sequence, chromosomal localization, and generation of a tissue-specific isoform. (PubMed id 9790768)1, 2, 3, 9 Nayler O.... Stamm S. (Genomics 1998)
    2. Human RNPS1 and its associated factors: a versatile alternative pre- mRNA splicing regulator in vivo. (PubMed id 14729963)1, 2, 9 Sakashita E.... Mayeda A. (Mol. Cell. Biol. 2004)
    3. Molecular cloning of htra2-beta-1 and htra2-beta-2, two human homologs of tra-2 generated by alternative splicing. (PubMed id 9212162)1, 2, 9 Beil B.... Stamm S. (DNA Cell Biol. 1997)
    4. Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies. (PubMed id 21102462)1, 4 Elks C.E....Murray A. (Nat. Genet. 2010)
    5. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    6. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    7. Distinct sequence motifs within the 68-kDa subunit of cleavage factor Im mediate RNA binding, protein-protein interactions, and subcellular localization. (PubMed id 15169763)1, 2 Dettwiler S.... Barabino S.M. (J. Biol. Chem. 2004)
    8. Tau exon 10, whose missplicing causes frontotemporal dementia, is regulated by an intricate interplay of cis elements and trans factors. (PubMed id 15009664)1, 2 Wang J.... Andreadis A. (J. Neurochem. 2004)
    9. Dephosphorylated SRp38 acts as a splicing repressor in response to heat shock. (PubMed id 14765198)1, 2 Shin C.... Manley J.L. (Nature 2004)
    10. 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. (Genome Res. 2004)

    (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: 6434 HGNC: 10781 AceView: SFRS10 Ensembl:ENSG00000136527 euGenes: HUgn6434
    ECgene: TRA2B Kegg: 6434 H-InvDB: TRA2B

    (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 TRA2B 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 TRA2B gene:
    Search GeneIP for patents involving TRA2B

    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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