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    Ddx60 DEXD/H-box helicase 60 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100360801, updated on 9-Dec-2024

    Summary

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    Symbol
    Ddx60provided by RGD
    Full Name
    DEXD/H-box helicase 60provided by RGD
    Primary source
    RGD:1560014
    See related
    EnsemblRapid:ENSRNOG00000059097 AllianceGenome:RGD:1560014
    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
    RGD1560014; AABR07025140.1
    Summary
    Predicted to enable double-stranded DNA binding activity; double-stranded RNA binding activity; and single-stranded RNA binding activity. Predicted to be involved in positive regulation of MDA-5 signaling pathway; positive regulation of RIG-I signaling pathway; and response to virus. Predicted to act upstream of or within defense response to virus. Predicted to be located in cytosol and intermediate filament cytoskeleton. Orthologous to several human genes including DDX60 (DExD/H-box helicase 60). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 282.6), Lung (RPKM 203.1) and 8 other tissues See more
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    Genomic context

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    See Ddx60 in Genome Data Viewer
    Location:
    16p12
    Exon count:
    40
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (33087940..33208843, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (28077000..28197903, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (29816144..29936220, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene probable ATP-dependent RNA helicase DDX60 Neighboring gene uncharacterized LOC134482493 Neighboring gene palladin-like 1 Neighboring gene uncharacterized LOC134482494 Neighboring gene uncharacterized LOC120097508 Neighboring gene palladin, cytoskeletal associated protein Neighboring gene uncharacterized LOC120097383 Neighboring gene U6 spliceosomal RNA

    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. DDX60, a DEXD/H box helicase, is a novel antiviral factor promoting RIG-I-like receptor-mediated signaling. Miyashita M, et al. Mol Cell Biol, 2011 Sep. PMID 21791617, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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 double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables double-stranded RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables double-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables single-stranded RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables single-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in defense response to virus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of MDA-5 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of RIG-I signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intermediate filament cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DEXD/H-box helicase 60
    Names
    DEAD (Asp-Glu-Ala-Asp) box polypeptide 60
    mCG11385-like
    probable ATP-dependent RNA helicase DDX60
    probable ATP-dependent RNA helicase DDX60-like

    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_001419856.1 → NP_001406785.1  DEXD/H-box helicase 60

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/TrEMBL
      A0A0G2K744
      Related
      ENSRNOP00000074057.3, ENSRNOT00000088707.3

    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_086034.1 Reference GRCr8

      Range
      33087940..33208843 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063274962.1 → XP_063131032.1  DEXD/H-box helicase 60 isoform X3

      UniProtKB/TrEMBL
      A0A0G2K744

    2. XM_063274961.1 → XP_063131031.1  DEXD/H-box helicase 60 isoform X2

      UniProtKB/TrEMBL
      A0A0G2K744

    3. XM_063274958.1 → XP_063131028.1  DEXD/H-box helicase 60 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K744

    4. XM_063274959.1 → XP_063131029.1  DEXD/H-box helicase 60 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K744

    5. XM_063274957.1 → XP_063131027.1  DEXD/H-box helicase 60 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K744

    6. XM_063274960.1 → XP_063131030.1  DEXD/H-box helicase 60 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K744

    7. XM_039095171.2 → XP_038951099.1  DEXD/H-box helicase 60 isoform X4

      UniProtKB/TrEMBL
      A0A0G2K744
      Conserved Domains (2) summary
      COG4581
      Location:759 → 1369
      Dob10; Superfamily II RNA helicase [Replication, recombination and repair]
      cd18025
      Location:760 → 937
      DEXHc_DDX60; DEXH-box helicase domain of DEAD box protein 60

    8. XM_039095173.2 → XP_038951101.1  DEXD/H-box helicase 60 isoform X5

      Conserved Domains (1) summary
      cd18025
      Location:760 → 937
      DEXHc_DDX60; DEXH-box helicase domain of DEAD box protein 60

    9. XM_039095174.2 → XP_038951102.1  DEXD/H-box helicase 60 isoform X6

      Conserved Domains (1) summary
      cd18025
      Location:760 → 937
      DEXHc_DDX60; DEXH-box helicase domain of DEAD box protein 60
    Nucleotide Protein Strain
    Heading Accession and Version

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