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    Ddx42 DEAD (Asp-Glu-Ala-Asp) box polypeptide 42 [ Mus musculus (house mouse) ]

    Gene ID: 72047, updated on 31-Jan-2019

    Summary

    Official Symbol
    Ddx42provided by MGI
    Official Full Name
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 42provided by MGI
    Primary source
    MGI:MGI:1919297
    See related
    Ensembl:ENSMUSG00000020705
    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
    RHELP; RNAHP; SF3b125; AW319508; AW556242; 1810047H21Rik; B430002H05Rik
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 21.4), CNS E14 (RPKM 14.0) and 27 other tissues See more
    Orthologs

    Genomic context

    See Ddx42 in Genome Data Viewer
    Location:
    11; 11 E1
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 11 NC_000077.6 (106216926..106249140)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (106078240..106110454)

    Chromosome 11 - NC_000077.6Genomic Context describing neighboring genes Neighboring gene STE20-related kinase adaptor alpha Neighboring gene coiled-coil domain containing 47 Neighboring gene FtsJ RNA methyltransferase homolog 3 (E. coli) Neighboring gene protease (prosome, macropain) 26S subunit, ATPase 5

    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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Gene trapped (1) 
    • Targeted (2) 

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    helicase activity IEA
    Inferred from Electronic Annotation
    more info
     
    hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    protein localization ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    ATP-dependent RNA helicase DDX42
    Names
    DEAD box protein 42
    RNA helicase-related protein
    NP_082350.3
    XP_017170268.1
    XP_017170269.1

    NCBI Reference Sequences (RefSeq)

    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_001361640.1NP_001348569.1  ATP-dependent RNA helicase DDX42 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a.
      Source sequence(s)
      AL604045
      Conserved Domains (1) summary
      cl26939
      Location:30489
      DEXDc; DEAD-like helicases superfamily
    2. NM_001361642.1NP_001348571.1  ATP-dependent RNA helicase DDX42 isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence and lacks two alternate in-frame exons compared to variant 1. The resulting isoform (c) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform a.
      Source sequence(s)
      AL604045
      Conserved Domains (1) summary
      COG0513
      Location:76343
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    3. NM_001361643.1NP_001348572.1  ATP-dependent RNA helicase DDX42 isoform d

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (d) is shorter at the N-terminus compared to isoform a. Variants 4 and 5 both encode the same isoform (d).
      Source sequence(s)
      AK134182, AL596331, AL604045
      Conserved Domains (1) summary
      COG0513
      Location:4341
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    4. NM_001361644.1NP_001348573.1  ATP-dependent RNA helicase DDX42 isoform d

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (d) is shorter at the N-terminus compared to isoform a. Variants 4 and 5 both encode the same isoform (d).
      Source sequence(s)
      AL604045
      Conserved Domains (1) summary
      COG0513
      Location:4341
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    5. NM_028074.4NP_082350.3  ATP-dependent RNA helicase DDX42 isoform a

      See identical proteins and their annotated locations for NP_082350.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AI836088, AK007805, AK049311
      Consensus CDS
      CCDS48956.1
      UniProtKB/Swiss-Prot
      Q810A7
      Related
      ENSMUSP00000021046.5, ENSMUST00000021046.5
      Conserved Domains (3) summary
      PRK10590
      Location:254678
      PRK10590; ATP-dependent RNA helicase RhlE; Provisional
      cd00079
      Location:470601
      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:255459
      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 ...

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000077.6 Reference GRCm38.p4 C57BL/6J

      Range
      106216926..106249140
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017314780.1XP_017170269.1  ATP-dependent RNA helicase DDX42 isoform X1

      Conserved Domains (1) summary
      COG0513
      Location:4341
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
    2. XM_017314779.1XP_017170268.1  ATP-dependent RNA helicase DDX42 isoform X1

      Conserved Domains (1) summary
      COG0513
      Location:4341
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
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