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

Summary

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Official Symbol: rde-12
Official Full Name: 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 response to exogenous dsRNA and siRNA processing. 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, Dec 2024]
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Genomic context

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See rde-12 in Genome Data Viewer

Location:: chromosome: V

Exon count:: 7

Sequence:: Chromosome: V; NC_003283.11 (13665389..13669292)

Chromosome V - NC_003283.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003283.11

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

F58G11.2 (e-PCR)
- UniSTS:321530

Homology

Orthologs from OrthoDB

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	IBA Inferred from Biological aspect of Ancestor 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 protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in gamete generation	IBA Inferred from Biological aspect of Ancestor more info
involved_in germ cell development	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
is_active_in P granule	IBA Inferred from Biological aspect of Ancestor more info
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
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor 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

NC_003283.11 Reference assembly

Range

13665389..13669292

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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
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