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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

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