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    Ddx39b DEAD box helicase 39b [ Mus musculus (house mouse) ]

    Gene ID: 53817, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ddx39bprovided by MGI
    Official Full Name
    DEAD box helicase 39bprovided by MGI
    Primary source
    MGI:MGI:99240
    See related
    Ensembl:ENSMUSG00000019432 AllianceGenome:MGI:99240
    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
    Bat1; Bat-1; Bat1a; D6S81Eh; D17H6S81E; D17H6S81E-1; 0610030D10Rik
    Summary
    Predicted to enable several functions, including ATP hydrolysis activity; ATP-dependent protein binding activity; and RNA binding activity. Predicted to be involved in several processes, including RNA metabolic process; positive regulation of cell growth involved in cardiac muscle cell development; and positive regulation of macromolecule biosynthetic process. Located in nuclear speck. Is expressed in embryo. Human ortholog(s) of this gene implicated in type 1 diabetes mellitus. Orthologous to human DDX39B (DExD-box helicase 39B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 289.9), limb E14.5 (RPKM 249.9) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Ddx39b in Genome Data Viewer
    Location:
    17 B1; 17 18.6 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (35460722..35472683)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (35241746..35253707)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene microRNA 6974 Neighboring gene STARR-positive B cell enhancer ABC_E11642 Neighboring gene lymphotoxin A Neighboring gene nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor like 1 Neighboring gene STARR-positive B cell enhancer ABC_E5601 Neighboring gene STARR-positive B cell enhancer ABC_E7528 Neighboring gene STARR-positive B cell enhancer ABC_E1942 Neighboring gene ATPase, H+ transporting, lysosomal V1 subunit G2 Neighboring gene STARR-positive B cell enhancer ABC_E10948 Neighboring gene predicted gene, 22589 Neighboring gene microRNA 6975 Neighboring gene predicted gene, 25128 Neighboring gene microRNA 8094 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:35395114-35395315 Neighboring gene STARR-positive B cell enhancer ABC_E2487 Neighboring gene STARR-positive B cell enhancer ABC_E5603 Neighboring gene histocompatibility 2, D region locus 1 Neighboring gene vacuolar protein sorting 52 pseudogene

    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)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC19235, MGC38799

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP hydrolysis activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP-dependent H2AZ histone chaperone activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent H3-H4 histone complex chaperone activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent activity, acting on RNA ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP-dependent protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA clamp loader activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA helicase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA helicase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables U4 snRNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables U4 snRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables U6 snRNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables U6 snRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin extrusion motor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables cohesin loader activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in RNA secondary structure unwinding IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in RNA secondary structure unwinding ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in RNA splicing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chromatin looping IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA export from nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cell growth involved in cardiac muscle cell development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of vascular associated smooth muscle cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spliceosomal complex assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in spliceosomal complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of U4 snRNP IEA
    Inferred from Electronic Annotation
    more info
     
    part_of U4 snRNP ISO
    Inferred from Sequence Orthology
    more info
     
    part_of U6 snRNP IEA
    Inferred from Electronic Annotation
    more info
     
    part_of U6 snRNP ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear matrix ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of transcription export complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of transcription export complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    spliceosome RNA helicase Ddx39b
    Names
    56 kDa U2AF65-associated protein
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 39B
    DEAD box protein UAP56
    HLA-B-associated transcript 1A
    nuclear RNA helicase Bat1
    spliceosome RNA helicase Bat1
    NP_001239386.1
    NP_062667.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001252457.1NP_001239386.1  spliceosome RNA helicase Ddx39b

      See identical proteins and their annotated locations for NP_001239386.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      CR974444
      Consensus CDS
      CCDS28695.1
      UniProtKB/Swiss-Prot
      Q8HW97, Q9Z1N5
      UniProtKB/TrEMBL
      Q3T9L0, Q3TIE4, Q3TPL7, Q3U837, Q3UVN0
      Related
      ENSMUSP00000134178.2, ENSMUST00000172549.2
      Conserved Domains (2) summary
      cd18787
      Location:262391
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17950
      Location:44251
      DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39
    2. NM_019693.3NP_062667.1  spliceosome RNA helicase Ddx39b

      See identical proteins and their annotated locations for NP_062667.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AA231260, AK051034, CN716634, CR974444
      Consensus CDS
      CCDS28695.1
      UniProtKB/Swiss-Prot
      Q8HW97, Q9Z1N5
      UniProtKB/TrEMBL
      Q3T9L0, Q3TIE4, Q3TPL7, Q3U837, Q3UVN0
      Related
      ENSMUSP00000070682.6, ENSMUST00000068056.12
      Conserved Domains (2) summary
      cd18787
      Location:262391
      SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
      cd17950
      Location:44251
      DEADc_DDX39; DEAD-box helicase domain of DEAD box protein 39

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000083.7 Reference GRCm39 C57BL/6J

      Range
      35460722..35472683
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)