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RDR6 RNA-dependent RNA polymerase 6 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 824112, updated on 18-Sep-2024

Summary

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Official Symbol
RDR6
Official Full Name
RNA-dependent RNA polymerase 6
Primary source
TAIR:AT3G49500
Locus tag
AT3G49500
See related
Araport:AT3G49500
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
AtRDR6; RNA-dependent RNA polymerase 6; SDE1; SGS2; SILENCING DEFECTIVE 1; SUPPRESSOR OF GENE SILENCING 2
Summary
Encodes RNA-dependent RNA polymerase. Involved in trans-acting siRNA and other siRNA biogenesis. Required for post-transcriptional gene silencing and natural virus resistance.
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Genomic context

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See RDR6 in Genome Data Viewer
Location:
chromosome: 3
Exon count:
3
Sequence:
Chromosome: 3; NC_003074.8 (18348974..18353673, complement)

Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene nascent polypeptide-associated complex subunit alpha-like protein 2 Neighboring gene F-box/FBD/LRR protein Neighboring gene uncharacterized protein Neighboring gene F-box family protein Neighboring gene F-box and associated interaction domains-containing protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003074.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Post-transcriptional gene silencing triggers dispensable DNA methylation in gene body in Arabidopsis. Taochy C, et al. Nucleic Acids Res, 2019 Sep 26. PMID 31372641, Free PMC Article
  2. Improperly terminated, unpolyadenylated mRNA of sense transgenes is targeted by RDR6-mediated RNA silencing in Arabidopsis. Luo Z, et al. Plant Cell, 2007 Mar. PMID 17384170, Free PMC Article
  3. Biochemical activities of Arabidopsis RNA-dependent RNA polymerase 6. Curaba J, et al. J Biol Chem, 2008 Feb 8. PMID 18063577, Free PMC Article
  4. In plants, decapping prevents RDR6-dependent production of small interfering RNAs from endogenous mRNAs. Martínez de Alba AE, et al. Nucleic Acids Res, 2015 Mar 11. PMID 25694514, Free PMC Article
  5. The Arabidopsis miR472-RDR6 silencing pathway modulates PAMP- and effector-triggered immunity through the post-transcriptional control of disease resistance genes. Boccara M, et al. PLoS Pathog, 2014 Jan. PMID 24453975, Free PMC Article

See all (35) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A small peptide inhibits siRNA amplification in plants by mediating autophagic degradation of SGS3/RDR6 bodies.
    Title: A small peptide inhibits siRNA amplification in plants by mediating autophagic degradation of SGS3/RDR6 bodies.
  2. Synergy between the anthocyanin and RDR6/SGS3/DCL4 siRNA pathways expose hidden features of Arabidopsis carbon metabolism.
    Title: Synergy between the anthocyanin and RDR6/SGS3/DCL4 siRNA pathways expose hidden features of Arabidopsis carbon metabolism.
  3. CHH and CHG methylation coincides spatially and temporally with RDR6-dependent products derived from the central and 3' regions of the coding sequence, and requires the components of the RNA-directed DNA methylation pathway NRPE1, DRD1 and DRM2, but not CLSY1, NRPD1, RDR2 or DCL3, suggesting that RDR6-dependent products, namely long dsRNAs and/or siRNAs, trigger post-transcriptional gene-dependent DNA methylation.
    Title: Post-transcriptional gene silencing triggers dispensable DNA methylation in gene body in Arabidopsis.
  4. DCL2- and RDR6-dependent transitive silencing of SMXL4 and SMXL5 in Arabidopsis dcl4 mutants causes defective phloem transport and carbohydrate over-accumulation
    Title: DCL2- and RDR6-dependent transitive silencing of SMXL4 and SMXL5 in Arabidopsis dcl4 mutants causes defective phloem transport and carbohydrate over-accumulation.
  5. This expression-dependent RdDM mechanism functions through RNAi degradation of transposable element mRNAs into small RNAs guided by the RNA-dependent RNA polymerase 6 (RDR6) protein and is therefore referred to as RDR6-RdDM.We identified a new mechanism of expression-dependent RdDM, which functions through DICER-LIKE3 (DCL3) but bypasses the requirement of both RNA polymerase IV and RDR6 (termed DCL3-RdDM).
    Title: Full-length autonomous transposable elements are preferentially targeted by expression-dependent forms of RNA-directed DNA methylation.
  6. The results show that the expression of VPg alone, independent of viral infection, is sufficient to induce the degradation of SGS3 and its intimate partner, RDR6.
    Title: The Potyvirus Silencing Suppressor Protein VPg Mediates Degradation of SGS3 via Ubiquitination and Autophagy Pathways.
  7. Mungbean yellow mosaic Indian virus AC2 interferes with the biogenesis of siRNA by interacting and blocking the RDR6 activity.
    Title: Mungbean yellow mosaic Indian virus encoded AC2 protein suppresses RNA silencing by inhibiting Arabidopsis RDR6 and AGO1 activities.
  8. Data show that the lethality of decapping mutants is suppressed by impairing RNA-dependent RNA polymerase 6 (RDR6) activity.
    Title: In plants, decapping prevents RDR6-dependent production of small interfering RNAs from endogenous mRNAs.
  9. The Arabidopsis miR472-RDR6 silencing pathway modulates PAMP- and effector-triggered immunity through the post-transcriptional control of disease resistance genes.
    Title: The Arabidopsis miR472-RDR6 silencing pathway modulates PAMP- and effector-triggered immunity through the post-transcriptional control of disease resistance genes.
  10. RDR6-RdDM functions to recognize active Polymerase II-derived Transposable element (TE) mRNA transcripts to both trigger and correctively reestablish TE methylation and epigenetic silencing.
    Title: The initiation of epigenetic silencing of active transposable elements is triggered by RDR6 and 21-22 nucleotide small interfering RNAs.
Submit: New GeneRIF Correction See all GeneRIFs (24)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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NM_001339424.1
NM_001339425.1
NM_001339426.1
NM_114810.3

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables RNA-dependent RNA polymerase activity ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within RNAi-mediated antiviral immune response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within carpel development IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within defense response to virus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within gynoecium development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within leaf development IGI
Inferred from Genetic Interaction
more info
 PubMed 
NOT involved_in miRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within post-transcriptional gene silencing TAS
Traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within recognition of pollen IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within siRNA processing IEP
Inferred from Expression Pattern
more info
 PubMed 
acts_upstream_of_or_within siRNA processing TAS
Traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within ta-siRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
RNA-dependent RNA polymerase 6
NP_190519.1
  • RNA-dependent RNA polymerase 6 (RDR6); CONTAINS InterPro DOMAIN/s: RNA-dependent RNA polymerase, eukaryotic-type (InterPro:IPR007855); BEST Arabidopsis thaliana protein match is: RNA-dependent RNA polymerase 1 (TAIR:AT1G14790.1); Has 633 Blast hits to 609 proteins in 113 species: Archae - 0; Bacteria - 0; Metazoa - 73; Fungi - 284; Plants - 204; Viruses - 2; Other Eukaryotes - 70 (source: NCBI BLink).

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_003074.8 Reference assembly

    Range
    18348974..18353673 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001339423.1 → NP_001327617.1  RNA-dependent RNA polymerase 6 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    A0A1I9LSW2, Q9LKP0, Q9SG02
    UniProtKB/TrEMBL
    A0A7G2ETS9

  2. NM_114810.3 → NP_190519.1  RNA-dependent RNA polymerase 6 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_190519.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    A0A1I9LSW2, Q9LKP0, Q9SG02
    UniProtKB/TrEMBL
    A0A7G2ETS9
    Conserved Domains (2) summary
    pfam05183
    Location:424 → 940
    RdRP; RNA dependent RNA polymerase
    cl17169
    Location:68 → 112
    RRM_SF; RNA recognition motif (RRM) superfamily

  3. NM_001339426.1 → NP_001327620.1  RNA-dependent RNA polymerase 6 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    A0A1I9LSW2, Q9LKP0, Q9SG02
    UniProtKB/TrEMBL
    A0A7G2ETS9

  4. NM_001339425.1 → NP_001327619.1  RNA-dependent RNA polymerase 6 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    A0A1I9LSW2, Q9LKP0, Q9SG02
    UniProtKB/TrEMBL
    A0A7G2ETS9

  5. NM_001339424.1 → NP_001327618.1  RNA-dependent RNA polymerase 6 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    A0A1I9LSW2, Q9LKP0, Q9SG02
    UniProtKB/TrEMBL
    A0A7G2ETS9
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9SG02.1

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