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    Ddx56 DEAD-box helicase 56 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 289780, updated on 9-Dec-2024

    Summary

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    Symbol
    Ddx56provided by RGD
    Full Name
    DEAD-box helicase 56provided by RGD
    Primary source
    RGD:1303195
    See related
    EnsemblRapid:ENSRNOG00000004670 AllianceGenome:RGD:1303195
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Ddx21; RH-II/Gu
    Summary
    Predicted to enable RNA stem-loop binding activity and protein sequestering activity. Involved in positive regulation of neuron projection development. Predicted to be located in cytosol. Predicted to be active in nucleolus. Orthologous to human DDX56 (DEAD-box helicase 56). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 91.5), Spleen (RPKM 80.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ddx56 in Genome Data Viewer
    Location:
    14q21
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (85325942..85336262, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (81112008..81122331, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (86378937..86387637, complement)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene NPC1 like intracellular cholesterol transporter 1 Neighboring gene ribosomal protein L13A, pseudogene 10 Neighboring gene ribosome biogenesis protein NSA2 homolog pseudogene Neighboring gene transmembrane p24 trafficking protein 4

    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. Silencing of RNA helicase II/Gualpha inhibits mammalian ribosomal RNA production. Henning D, et al. J Biol Chem, 2003 Dec 26. PMID 14559904
    2. The DEXD/H-box RNA helicase RHII/Gu is a co-factor for c-Jun-activated transcription. Westermarck J, et al. EMBO J, 2002 Feb 1. PMID 11823437, Free PMC Article
    3. Targeting of nonexpressed genes in embryonic stem cells via homologous recombination. Johnson RS, et al. Science, 1989 Sep 15. PMID 2506639
    4. DExD/H-box RNA helicases in ribosome biogenesis. Martin R, et al. RNA Biol, 2013 Jan. PMID 22922795, Free PMC Article
    5. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC93697

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA stem-loop binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein sequestering activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_negative_effect modulation by host of viral RNA genome replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of type I interferon production ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    probable ATP-dependent RNA helicase DDX56
    Names
    DEAD (Asp-Glu-Ala-Asp) box helicase 56
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 56
    RNA helicase II/Gu
    probable ATP-dependent RNA helicase DDX56-like
    NP_001004211.1
    NP_001401918.1

    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_001004211.1 → NP_001004211.1  probable ATP-dependent RNA helicase DDX56 isoform 1

      See identical proteins and their annotated locations for NP_001004211.1

      Status: PROVISIONAL

      Source sequence(s)
      BC078919
      UniProtKB/TrEMBL
      G3V6M5, Q6AYT6
      Conserved Domains (3) summary
      COG0513
      Location:1 → 457
      SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]
      cd00079
      Location:170 → 324
      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 ...
      cl21455
      Location:1 → 155
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    2. NM_001414989.1 → NP_001401918.1  probable ATP-dependent RNA helicase DDX56 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000014
      UniProtKB/TrEMBL
      A0A0G2K0E0, A6IKS3
      Related
      ENSRNOP00000071407.1, ENSRNOT00000089384.3

    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_086032.1 Reference GRCr8

      Range
      85325942..85336262 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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