nrde-3 Nuclear RNAi defective-3 protein [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: nrde-3
Official Full Name: Nuclear RNAi defective-3 protein
Primary source: WormBase:WBGene00019862
Locus tag: CELE_R04A9.2
See related: AllianceGenome:WB:WBGene00019862
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 siRNA binding activity. Involved in RNA import into nucleus; olfactory learning; and regulation of gene expression. Located in nucleus. Part of RNAi effector complex. Is expressed in several structures, including AWC; germ line; gonad; hypodermis; and vulva. [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See nrde-3 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 11

Sequence:: Chromosome: X; NC_003284.9 (372235..376900)

Chromosome X - NC_003284.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003284.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Imaging of native transcription and transcriptional dynamics in vivo using a tagged Argonaute protein.
Title: Imaging of native transcription and transcriptional dynamics in vivo using a tagged Argonaute protein.
Argonaute NRDE-3 and MBT domain protein LIN-61 redundantly recruit an H3K9me3 HMT to prevent embryonic lethality and transposon expression.
Title: Argonaute NRDE-3 and MBT domain protein LIN-61 redundantly recruit an H3K9me3 HMT to prevent embryonic lethality and transposon expression.
Studies indicate that the heritable silencing pathway depends on at least four genes, designated as nuclear RNAi defective 1-4 (nrde-1/2/3/4).
Title: Small RNAs, RNAi and the inheritance of gene silencing in Caenorhabditis elegans.
nrde-3 contributes to transitive RNAi, whereby amplified silencing triggers act in trans to silence sequence-similar genes.
Title: The nuclear argonaute NRDE-3 contributes to transitive RNAi in Caenorhabditis elegans.
NRDE-3 binds siRNAs generated by RNA-dependent RNA polymerases acting on messenger RNA templates in the cytoplasm and redistributes to the nucleus
Title: An Argonaute transports siRNAs from the cytoplasm to the nucleus.

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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

R04A9.2 (e-PCR)
- UniSTS:312040

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA endonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables miRNA 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
enables siRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables single-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in RNA import into nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in olfactory learning	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of post-transcriptional gene silencing by regulatory ncRNA	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulatory ncRNA-mediated gene silencing	IEA Inferred from Electronic Annotation more info
involved_in regulatory ncRNA-mediated post-transcriptional gene silencing	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulatory ncRNA-mediated post-transcriptional gene silencing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of RISC complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RNAi effector complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasmic ribonucleoprotein granule	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Nuclear RNAi defective-3 protein

NP_508092.1

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_003284.9 Reference assembly

Range

372235..376900

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_075691.7 → NP_508092.1 Nuclear RNAi defective-3 protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_508092.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q21691

Conserved Domains (2) summary

cd02846
Location:385 → 499

PAZ_argonaute_like; PAZ domain, argonaute_like subfamily. Argonaute is part of the RNA-induced silencing complex (RISC), and is an endonuclease that plays a key role in the RNA interference pathway. The PAZ domain has been named after the proteins Piwi,Argonaut, and Zwille. ...

pfam02171
Location:673 → 1001

Piwi; Piwi domain