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    DDX39B DExD-box helicase 39B [ Sus scrofa (pig) ]

    Gene ID: 448813, updated on 3-Dec-2024

    Summary

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    Official Symbol
    DDX39Bprovided by VGNC
    Official Full Name
    DExD-box helicase 39Bprovided by VGNC
    Primary source
    VGNC:VGNC:109422
    See related
    Ensembl:ENSSSCG00000001400
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Also known as
    BAT1
    Expression
    Ubiquitous expression in spleen (RPKM 82.4), lung (RPKM 68.5) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See DDX39B in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 7 NC_010449.5 (23658089..23669095, complement)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 7 NC_010449.4 (27582945..27593980)

    Chromosome 7 - NC_010449.5Genomic Context describing neighboring genes Neighboring gene MHC class I antigen 7 Neighboring gene MHC class I antigen 6 Neighboring gene mitochondrial coiled-coil domain 1 Neighboring gene uncharacterized LOC102161099 Neighboring gene ATPase H+ transporting V1 subunit G2 Neighboring gene NFKB inhibitor like 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. Characterization of six new loci within the swine major histocompatibility complex class III region. Nunes M, et al. Mamm Genome, 1994 Oct. PMID 7849397
    2. A detailed physical map of the porcine major histocompatibility complex (MHC) class III region: comparison with human and mouse MHC class III regions. Peelman LJ, et al. Mamm Genome, 1996 May. PMID 8661725
    3. A first map of the porcine major histocompatibility complex class I region. Velten F, et al. Tissue Antigens, 1998 Feb. PMID 9510374
    4. The BAT1 gene in the MHC encodes an evolutionarily conserved putative nuclear RNA helicase of the DEAD family. Peelman LJ, et al. Genomics, 1995 Mar 20. PMID 7601445
    5. Sequence of the swine major histocompatibility complex region containing all non-classical class I genes. Chardon P, et al. Tissue Antigens, 2001 Jan. PMID 11169259

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA export from nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    spliceosome RNA helicase DDX39B
    Names
    56 kDa U2AF65-associated protein
    DEAD box protein UAP56
    DEAD-box helicase 39B
    HLA-B associated transcript 1
    spliceosome RNA helicase BAT1
    NP_001005157.1
    XP_005665849.1
    XP_005665850.1
    XP_005665851.1
    XP_020954000.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001005157.1 → NP_001005157.1  spliceosome RNA helicase DDX39B

      See identical proteins and their annotated locations for NP_001005157.1

      Status: PROVISIONAL

      Source sequence(s)
      AJ251914
      UniProtKB/Swiss-Prot
      Q29024
      UniProtKB/TrEMBL
      A0A287ADC3, B9TSQ2
      Related
      ENSSSCP00000041973.3, ENSSSCT00000042719.3
      Conserved Domains (2) summary
      cd18787
      Location:262 → 391
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17950
      Location:44 → 251
      DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39

    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010449.5 Reference Sscrofa11.1 Primary Assembly

      Range
      23658089..23669095 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005665794.3 → XP_005665851.1  spliceosome RNA helicase DDX39B isoform X3

      See identical proteins and their annotated locations for XP_005665851.1

      UniProtKB/Swiss-Prot
      Q29024
      UniProtKB/TrEMBL
      A0A287ADC3, B9TSQ2
      Conserved Domains (2) summary
      cd18787
      Location:262 → 391
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17950
      Location:44 → 251
      DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39

    2. XM_005665792.3 → XP_005665849.1  spliceosome RNA helicase DDX39B isoform X2

      UniProtKB/TrEMBL
      A0A4X1VIQ6, A0A8D0JSX3
      Conserved Domains (3) summary
      PTZ00424
      Location:77 → 461
      PTZ00424; helicase 45; Provisional
      cd00079
      Location:307 → 433
      HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
      cd00268
      Location:90 → 293
      DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif ...

    3. XM_021098341.1 → XP_020954000.1  spliceosome RNA helicase DDX39B isoform X1

      UniProtKB/TrEMBL
      A0A480VM75, A0A480YVB6, A0A8D0P8I6
      Conserved Domains (1) summary
      COG0513
      Location:111 → 493
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

    4. XM_005665793.3 → XP_005665850.1  spliceosome RNA helicase DDX39B isoform X3

      See identical proteins and their annotated locations for XP_005665850.1

      UniProtKB/Swiss-Prot
      Q29024
      UniProtKB/TrEMBL
      A0A287ADC3, B9TSQ2
      Related
      ENSSSCP00000001487.4, ENSSSCT00000001529.5
      Conserved Domains (2) summary
      cd18787
      Location:262 → 391
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17950
      Location:44 → 251
      DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39

    RNA

    1. XR_002345590.1 RNA Sequence

    2. XR_002345591.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q29024.2 GenPept UniProtKB/Swiss-Prot:Q29024

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.