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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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