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    rde-12 DEAD-box ATP-dependent RNA helicase rde-12 [ Caenorhabditis elegans ]

    Gene ID: 179855, updated on 23-Nov-2023

    Summary

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    Gene symbol
    rde-12
    Gene description
    DEAD-box ATP-dependent RNA helicase rde-12
    Primary source
    WormBase:WBGene00010280
    Locus tag
    CELE_F58G11.2
    See related
    AllianceGenome:WB:WBGene00010280
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Enables enzyme binding activity. Involved in production of siRNA involved in RNA interference and response to exogenous dsRNA. Located in P granule and perinuclear region of cytoplasm. Part of RNAi effector complex. Is expressed in germ line and somatic cell. [provided by Alliance of Genome Resources, Apr 2022]
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    Genomic context

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    Location:
    chromosome: V
    Exon count:
    7
    Sequence:
    Chromosome: V; NC_003283.11 (13665389..13669292)

    Chromosome V - NC_003283.11Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene Mitochondrial proton/calcium exchanger protein Neighboring gene HTH OST-type domain-containing protein Neighboring gene MFS domain-containing protein Neighboring gene CID domain-containing protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003283.11

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Dual sgRNA-directed gene knockout using CRISPR/Cas9 technology in Caenorhabditis elegans. Chen X, et al. Sci Rep, 2014 Dec 22. PMID 25531445, Free PMC Article
    2. The DEAD box helicase RDE-12 promotes amplification of RNAi in cytoplasmic foci in C. elegans. Yang H, et al. Curr Biol, 2014 Apr 14. PMID 24684930, Free PMC Article
    3. The Vasa Homolog RDE-12 engages target mRNA and multiple argonaute proteins to promote RNAi in C. elegans. Shirayama M, et al. Curr Biol, 2014 Apr 14. PMID 24684931, Free PMC Article
    4. Perinuclear P granules are the principal sites of mRNA export in adult C. elegans germ cells. Sheth U, et al. Development, 2010 Apr. PMID 20223759, Free PMC Article
    5. β-Integrin de-phosphorylation by the Density-Enhanced Phosphatase DEP-1 attenuates EGFR signaling in C. elegans. Walser M, et al. PLoS Genet, 2017 Jan. PMID 28135265, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The Vasa Homolog RDE-12 engages target mRNA and multiple argonaute proteins to promote RNAi in C. elegans.
      Title: The Vasa Homolog RDE-12 engages target mRNA and multiple argonaute proteins to promote RNAi in C. elegans.
    2. The DEAD box helicase RDE-12 promotes amplification of RNAi in cytoplasmic foci in C. elegans.
      Title: The DEAD box helicase RDE-12 promotes amplification of RNAi in cytoplasmic foci in C. elegans.
    Submit: New GeneRIF Correction

    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 WormBase

    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 RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables enzyme binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulatory ncRNA-mediated gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in response to exogenous dsRNA IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in siRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in P granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in P granule IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in P-body IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of RNAi effector complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DEAD-box ATP-dependent RNA helicase rde-12
    NP_001256533.1
    • Confirmed by transcript evidence
    NP_001256534.1
    • Confirmed by transcript evidence
    NP_001256535.1
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003283.11 Reference assembly

      Range
      13665389..13669292
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001269604.3 → NP_001256533.1  DEAD-box ATP-dependent RNA helicase rde-12 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001256533.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      G3MU56, G3MU57, P90897
      Conserved Domains (4) summary
      cd00079
      Location:628 → 755
      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 ...
      PTZ00110
      Location:230 → 799
      PTZ00110; helicase; Provisional
      pfam13634
      Location:867 → 950
      Nucleoporin_FG; Nucleoporin FG repeat region
      cl21455
      Location:382 → 594
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    2. NM_001269606.3 → NP_001256535.1  DEAD-box ATP-dependent RNA helicase rde-12 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001256535.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P90897
      Conserved Domains (4) summary
      cd00079
      Location:609 → 736
      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 ...
      PTZ00110
      Location:211 → 780
      PTZ00110; helicase; Provisional
      pfam13634
      Location:848 → 931
      Nucleoporin_FG; Nucleoporin FG repeat region
      cl21455
      Location:363 → 575
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    3. NM_001269605.2 → NP_001256534.1  DEAD-box ATP-dependent RNA helicase rde-12 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001256534.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P90897
      Conserved Domains (4) summary
      cd00079
      Location:622 → 749
      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 ...
      PTZ00110
      Location:224 → 793
      PTZ00110; helicase; Provisional
      pfam13634
      Location:861 → 944
      Nucleoporin_FG; Nucleoporin FG repeat region
      cl21455
      Location:376 → 588
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P90897.4

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