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    Ddx42 DEAD-box helicase 42 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303607, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ddx42provided by RGD
    Official Full Name
    DEAD-box helicase 42provided by RGD
    Primary source
    RGD:1304909
    See related
    EnsemblRapid:ENSRNOG00000009474 AllianceGenome:RGD:1304909
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable RNA binding activity and RNA helicase activity. Predicted to be involved in U2-type prespliceosome assembly; protein localization; and regulation of apoptotic process. Predicted to be located in cytosol and nuclear speck. Predicted to be part of U2-type prespliceosome. Predicted to be active in nucleus. Orthologous to human DDX42 (DEAD-box helicase 42). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 314.0), Thymus (RPKM 241.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ddx42 in Genome Data Viewer
    Location:
    10q32.1
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (91648719..91680730)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (91148926..91180940)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (94407094..94439052)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene STE20 related adaptor alpha Neighboring gene coiled-coil domain containing 47 Neighboring gene small nucleolar RNA SNORA51 Neighboring gene FtsJ RNA 2'-O-methyltransferase 3 Neighboring gene proteasome 26S subunit, ATPase 5

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Gene expression profiling of the bone marrow mononuclear cells from patients with myelodysplastic syndrome. Qian J, et al. Oncol Rep, 2005 Nov. PMID 16211284
    2. The DEAD box protein Ddx42p modulates the function of ASPP2, a stimulator of apoptosis. Uhlmann-Schiffler H, et al. Oncogene, 2009 May 21. PMID 19377511
    3. Multiple types of skeletal muscle atrophy involve a common program of changes in gene expression. Lecker SH, et al. FASEB J, 2004 Jan. PMID 14718385
    4. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, et al. Nucleic Acids Res, 2007. PMID 17537823, Free PMC Article
    5. p38α MAPK proximity assay reveals a regulatory mechanism of alternative splicing in cardiomyocytes. Dumont AA, et al. Biochim Biophys Acta Mol Cell Res, 2019 Dec. PMID 31505169

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA helicase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in U2-type prespliceosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in protein localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type prespliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    ATP-dependent RNA helicase DDX42
    Names
    DEAD (Asp-Glu-Ala-Asp) box helicase 42
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 42
    NP_001100529.1
    XP_006247658.1
    XP_006247659.1
    XP_038942098.1

    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_001107059.1 → NP_001100529.1  ATP-dependent RNA helicase DDX42

      See identical proteins and their annotated locations for NP_001100529.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473948
      UniProtKB/TrEMBL
      A0A8I5ZLP6, A6HK14, D4A031
      Related
      ENSRNOP00000013046.5, ENSRNOT00000013046.7
      Conserved Domains (3) summary
      PRK10590
      Location:254 → 678
      PRK10590; ATP-dependent RNA helicase RhlE; Provisional
      cd00079
      Location:470 → 601
      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:255 → 459
      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: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      91648719..91680730
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006247597.5 → XP_006247659.1  ATP-dependent RNA helicase DDX42 isoform X1

      See identical proteins and their annotated locations for XP_006247659.1

      UniProtKB/TrEMBL
      A0A8I5ZLP6, A6HK14, D4A031
      Related
      ENSRNOP00000078905.1, ENSRNOT00000112384.2
      Conserved Domains (3) summary
      PRK10590
      Location:254 → 678
      PRK10590; ATP-dependent RNA helicase RhlE; Provisional
      cd00079
      Location:470 → 601
      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:255 → 459
      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 ...

    2. XM_006247596.5 → XP_006247658.1  ATP-dependent RNA helicase DDX42 isoform X1

      See identical proteins and their annotated locations for XP_006247658.1

      UniProtKB/TrEMBL
      A0A8I5ZLP6, A6HK14, D4A031
      Conserved Domains (3) summary
      PRK10590
      Location:254 → 678
      PRK10590; ATP-dependent RNA helicase RhlE; Provisional
      cd00079
      Location:470 → 601
      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:255 → 459
      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_039086170.2 → XP_038942098.1  ATP-dependent RNA helicase DDX42 isoform X2

      Conserved Domains (2) summary
      PTZ00110
      Location:30 → 489
      PTZ00110; helicase; Provisional
      cl11081
      Location:481 → 726
      dermokine
    Nucleotide Protein Strain
    Heading Accession and Version

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