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    Ddx39a DEAD box helicase 39a [ Mus musculus (house mouse) ]

    Gene ID: 68278, updated on 23-Jun-2021

    Summary

    Official Symbol
    Ddx39aprovided by MGI
    Official Full Name
    DEAD box helicase 39aprovided by MGI
    Primary source
    MGI:MGI:1915528
    See related
    Ensembl:ENSMUSG00000005481
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    BAT; BAT1; DDXL; Ddx39; URH49; 2610307C23Rik
    Expression
    Ubiquitous expression in liver E14 (RPKM 54.2), liver E14.5 (RPKM 51.8) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Ddx39a in Genome Data Viewer
    Location:
    8; 8 C2
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (84441806..84453533)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (83715177..83726904)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 8 NC_000074.5 (86239098..86247247)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene GIPC PDZ domain containing family, member 1 Neighboring gene prostaglandin E receptor 1 (subtype EP1) Neighboring gene protein kinase N1 Neighboring gene microRNA 1668 Neighboring gene adhesion G protein-coupled receptor E5 Neighboring gene predicted gene, 46046 Neighboring gene predicted gene, 42030

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables RNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in mRNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    colocalizes_with cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    ATP-dependent RNA helicase DDX39A
    Names
    ATP-dependent RNA helicase DDX39
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 39
    DEAD box protein 39
    DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 39
    UAP56-related helicase, 49 kDa
    NP_001350045.1
    NP_001350046.1
    NP_932099.2
    XP_017168441.1

    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_001363116.1NP_001350045.1  ATP-dependent RNA helicase DDX39A isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest protein-coding transcript and encodes isoform a. Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AC164432
      Consensus CDS
      CCDS22460.1
      Related
      ENSMUSP00000105435.2, ENSMUST00000109810.2
      Conserved Domains (2) summary
      cd18787
      Location:261390
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17950
      Location:43250
      DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39
    2. NM_001363117.1NP_001350046.1  ATP-dependent RNA helicase DDX39A isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) has a shorter and distinct N-terminus compared to isoform a.
      Source sequence(s)
      AC164432, AK151395
      Conserved Domains (1) summary
      COG0513
      Location:1221
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    3. NM_197982.3NP_932099.2  ATP-dependent RNA helicase DDX39A isoform a

      See identical proteins and their annotated locations for NP_932099.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AC164432, AK145927
      Consensus CDS
      CCDS22460.1
      UniProtKB/Swiss-Prot
      Q8VDW0
      Related
      ENSMUSP00000019576.9, ENSMUST00000019576.15
      Conserved Domains (2) summary
      cd18787
      Location:261390
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17950
      Location:43250
      DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39

    RNA

    1. NR_156447.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' and 3' ends compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC164432, AK137114

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000074.7 Reference GRCm39 C57BL/6J

      Range
      84441806..84453533
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017312952.3XP_017168441.1  ATP-dependent RNA helicase DDX39A isoform X1

      UniProtKB/TrEMBL
      Q3UAF1
      Conserved Domains (1) summary
      COG0513
      Location:1221
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
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