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

ENSG00000225073 Gene

protein-coding   GIFtS: 15
GCID: GC06Mj31485          (predicted)

ENSG00000225073


  Search for ENSG00000225073
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
56 KDa U2AF65-Associated Protein3     ATP-Dependent RNA Helicase P473
BAT13     DEAD Box Protein UAP563
EC 3.6.4.133     HLA-B-Associated Transcript 1 Protein3
UAP563     

External Ids:    Ensembl: ENSG000002250737   UniProtKB: Q138383   

Export aliases for ENSG00000225073 gene to outside databases


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

GeneCards Summary for ENSG00000225073 Gene: 
ENSG00000225073 is a protein-coding gene.

UniProtKB/Swiss-Prot: DX39B_HUMAN, Q13838
Function: Component of the THO subcomplex of the TREX complex. The TREX complex specifically associates with
spliced mRNA and not with unspliced pre-mRNA. It is recruited to spliced mRNAs by a transcription-independent
mechanism. Binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and
cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export. The recruitment
occurs via an interaction between ALYREF/THOC4 and the cap-binding protein NCBP1. DDX39B functions as a bridge
between ALYREF/THOC4 and the THO complex. The TREX complex is essential for the export of Kaposi's
sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. The recruitment of the
TREX complex to the intronless viral mRNA occurs via an interaction between KSHV ORF57 protein and ALYREF/THOC4
Function: Splice factor that is required for the first ATP-dependent step in spliceosome assembly and for the
interaction of U2 snRNP with the branchpoint. Has both RNA-stimulated ATP binding/hydrolysis activity and
ATP-dependent RNA unwinding activity. Even with the stimulation of RNA, the ATPase activity is weak. Can only
hydrolyze ATP but not other NTPs. The RNA stimulation of ATPase activity does not have a strong preference for
the sequence and length of the RNA. However, ssRNA stimulates the ATPase activity much more strongly than dsRNA.
Can unwind 5' or 3' overhangs or blunt end RNA duplexes in vitro. The ATPase and helicase activities are not
influenced by U2AF2 and ALYREF/THOC4




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for ENSG00000225073
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidENSG00000225073 promoter sequence
   Search SABiosciences Chromatin IP Primers for ENSG00000225073

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ENSG00000225073


Genomic Location:
Chromosome:6   

Ensembl cytogenetic band:  HSCHR6_MHC_COXp21.33   

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06Mj31485:       (about GC identifiers)

Start:
31,485,454 bp from pter      End:
31,501,810 bp from pter
Size:
16,357 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: DX39B_HUMAN, Q13838 (See protein sequence)
Recommended Name: Spliceosome RNA helicase DDX39B  
Size: 428 amino acids; 48991 Da
Subunit: Homodimer, and heterodimer with DDX39A. Component of the THO complex, which is composed of THOC1, THOC2,
THOC5, THOC6 and THOC7. Together with THOC3, ALYREF/THOC4 and DDX39B, THO forms the transcription/export (TREX)
complex. Component of the spliceosome. Interacts directly with U2AF2. Interacts directly with ALYREF/THOC4 and is
necessARy for ALYREF/THOC4 recruitment to spliced mRNA. Interacts with RBM8A, RNPS1 and SRRM1. Interacts with
FYTTD1/UIF and THOC1. Interacts with human cytomegalovirus/HHV-5 protein UL69. Interacts with MX1
Subcellular location: Nucleus. Nucleus speckle. Cytoplasm. Note=Can translocate to the cytoplasm in the presence
of MX1
Sequence caution: Sequence=CAI17665.2; Type=Erroneous gene model prediction;
5 PDB 3D structures from and Proteopedia for ENSG00000225073:
1T5I (3D)        1T6N (3D)        1XTI (3D)        1XTJ (3D)        1XTK (3D)    
Secondary accessions: B0S8C0 O43496 Q0EFA1 Q2L6F9 Q53GL9 Q5RJ64 Q5RJ66 Q5ST94 Q5STB4 Q5STB5
Q5STB7 Q5STB8 Q5STU4 Q5STU5 Q5STU6 Q5STU8 Q71V76
Alternative splicing: 2 isoforms:  Q13838-1   Q13838-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ENSG00000225073: NX_Q13838

Explore proteomics data for ENSG00000225073 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q13838

  • ENSG00000225073 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    ENSG00000225073 Protein Expression

    ENSEMBL proteins: 
     ENSP00000431969   ENSP00000404228   ENSP00000400326   ENSP00000390999   ENSP00000393712  
     ENSP00000392644   ENSP00000437017   ENSP00000412286   ENSP00000413832   ENSP00000405489  
     ENSP00000392819   ENSP00000392922   ENSP00000409162   ENSP00000408908   ENSP00000409929  
     ENSP00000391580   ENSP00000402876   ENSP00000403593   ENSP00000450155   ENSP00000449425  

    Human Recombinant Protein Products for ENSG00000225073: 
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    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 5/7 cellular component terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000346transcription export complex ----
    GO:0005634nucleus ----
    GO:0005681spliceosomal complex ----
    GO:0005687U4 snRNP ----
    GO:0005688U6 snRNP ----

    ENSG00000225073 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    5 InterPro protein domains:
     IPR011545 DNA/RNA_helicase_DEAD/DEAH_N
     IPR027417 P-loop_NTPase
     IPR014014 RNA_helicase_DEAD_Q_motif
     IPR014001 Helicase_ATP-bd
     IPR001650 Helicase_C

    Graphical View of Domain Structure for InterPro Entry Q13838

    ProtoNet protein and cluster: Q13838

    UniProtKB/Swiss-Prot: DX39B_HUMAN, Q13838
    Domain: The helicase C-terminal domain mediates interaction with ALYREF/THOC4
    Similarity: Belongs to the DEAD box helicase family. DECD subfamily
    Similarity: Contains 1 helicase ATP-binding domain
    Similarity: Contains 1 helicase C-terminal domain


    ENSG00000225073 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: DX39B_HUMAN, Q13838
    Function: Component of the THO subcomplex of the TREX complex. The TREX complex specifically associates with
    spliced mRNA and not with unspliced pre-mRNA. It is recruited to spliced mRNAs by a transcription-independent
    mechanism. Binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and
    cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export. The recruitment
    occurs via an interaction between ALYREF/THOC4 and the cap-binding protein NCBP1. DDX39B functions as a bridge
    between ALYREF/THOC4 and the THO complex. The TREX complex is essential for the export of Kaposi's
    sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. The recruitment of the
    TREX complex to the intronless viral mRNA occurs via an interaction between KSHV ORF57 protein and ALYREF/THOC4
    Function: Splice factor that is required for the first ATP-dependent step in spliceosome assembly and for the
    interaction of U2 snRNP with the branchpoint. Has both RNA-stimulated ATP binding/hydrolysis activity and
    ATP-dependent RNA unwinding activity. Even with the stimulation of RNA, the ATPase activity is weak. Can only
    hydrolyze ATP but not other NTPs. The RNA stimulation of ATPase activity does not have a strong preference for
    the sequence and length of the RNA. However, ssRNA stimulates the ATPase activity much more strongly than dsRNA.
    Can unwind 5' or 3' overhangs or blunt end RNA duplexes in vitro. The ATPase and helicase activities are not
    influenced by U2AF2 and ALYREF/THOC4
    Catalytic activity: ATP + H(2)O = ADP + phosphate
    Biophysicochemical properties: Kinetic parameters: KM=3.3 uM for ATP; Vmax=0.126 uM/min/mg enzyme with ATP as
    substrate;

         Enzyme Number (IUBMB): EC 3.6.4.131

         Gene Ontology (GO): 5/12 molecular function terms (GO ID links to tree view) (see all 12):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding ----
    GO:0004004ATP-dependent RNA helicase activity ----
    GO:0004386helicase activity ----
    GO:0005515protein binding ----
         
    ENSG00000225073 for ontologies           About GeneDecksing


    Animal Models:
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ENSG00000225073

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

    5/872 Interacting proteins for ENSG00000225073 (Q138382, 3 ENSP000004003264) via UniProtKB, MINT, STRING, and/or I2D (see all 872)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DDX39AO001482, 3, ENSP000002427764MINT-62737 MINT-7945693 MINT-62639 MINT-62813 MINT-7947479 I2D: score=4 STRING: ENSP00000242776
    HNRNPLLQ8WVV92, 3, ENSP000003870884MINT-62644 MINT-62818 MINT-62742 I2D: score=4 STRING: ENSP00000387088
    RPS15AP622442, 3, ENSP000003186464MINT-62817 MINT-62741 MINT-62643 I2D: score=4 STRING: ENSP00000318646
    DNAJC14Q6Y2X32, 3MINT-62641 MINT-62739 MINT-62815 I2D: score=2 
    DNM2P505702, 3MINT-7945693 MINT-7947479 I2D: score=4 
    About this table

    Gene Ontology (GO): 5/6 biological process terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000245spliceosomal complex assembly ----
    GO:0000398mRNA splicing, via spliceosome ----
    GO:0006406mRNA export from nucleus ----
    GO:0008380RNA splicing ----
    GO:0010501RNA secondary structure unwinding ----

    ENSG00000225073 for ontologies           About GeneDecksing



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

    Browse Tocris compounds for ENSG00000225073 (DX39B)

    Search CenterWatch for drugs/clinical trials and news about ENSG00000225073 / DX39B

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    18/24 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 24):
    ENST00000472840 ENST00000464411 ENST00000438578 ENST00000485571(uc011fde.2 uc011fdl.1 uc011fdm.1 uc011fdn.1)
    ENST00000456476(uc011fdi.2) ENST00000415689(uc011fdh.2 uc011fdg.2)
    ENST00000412106(uc011fdj.2 uc011fdp.1) ENST00000422243 ENST00000494127
    ENST00000467694 ENST00000427425 ENST00000482077(uc011fdk.1) ENST00000438449
    ENST00000455645 ENST00000420958 ENST00000451051 ENST00000442717 ENST00000439691

    miRNA
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    Inhib. RNA
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    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section
    See probesets specificity/sensitivity at GeneAnnot
    CGAP TAG: --


    See ENSG00000225073 Protein Expression from SPIRE MOPED and PaxDB    SABiosciences Custom PCR Arrays for ENSG00000225073
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    In Situ
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    (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
      --

    ENSEMBL Gene Tree for ENSG00000225073 (if available)
    TreeFam Gene Tree for ENSG00000225073 (if available)

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

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section
    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing ENSG00000225073
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (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 ENSG00000225073 gene, integrated from 9 sources (see all 24):
    (articles sorted by number of sources associating them with ENSG00000225073)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    2. Interferon-induced antiviral protein MxA interacts wi th the cellular RNA helicases UAP56 and URH49. (PubMed id 21859714)2 Wisskirchen C....Pavlovic J. (2011)
    3. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
    4. Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. (PubMed id 19413330)2 Gauci S....Mohammed S. (2009)
    5. Lysine acetylation targets protein complexes and co-regulates major cellular functions. (PubMed id 19608861)2 Choudhary C.... Mann M. (2009)
    6. UIF, a new mRNA export adaptor that works together with REF/ALY, requires FACT for recruitment to mRNA. (PubMed id 19836239)2 Hautbergue G.M.... Wilson S.A. (2009)
    7. Recruitment of the complete hTREX complex is required for Kaposi's sarcoma-associated herpesvirus intronless mRNA nuclear export and virus replication. (PubMed id 18974867)2 Boyne J.R.... Whitehouse A. (2008)
    8. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
    9. Biochemical characterization of the ATPase and helicase activity of UAP56, an essential pre-mRNA splicing and mRNA export factor. (PubMed id 17562711)2 Shen J....Zhao R. (2007)
    10. Rapid evolution of major histocompatibility complex class I genes in primates generates new disease alleles in humans via hitchhiking diversity. (PubMed id 16702430)2 Shiina T.... Bahram S. (2006)

    (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)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Ensembl:ENSG00000225073

    (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
      --

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for ENSG00000225073 gene:
    Search GeneIP for patents involving ENSG00000225073

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    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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