Gene: AT3G23780 (Arabidopsis thaliana)

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Gene Identifier
AT3G23780
Transcript Identifier
AT3G23780.1
Gene Type
Coding gene
Location
3 : 8567971-8573819 : negative

Family

Gene family
HOM03D000564
(236 genes in 31 species)
specific family
Subfamily
ORTHO03D003183
(38 genes in 29 species)
specific family

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Descriptions

Description
nuclear RNA polymerase D2A
Curated Summary
This gene encodes the second largest, catalytic subunit of the nuclear DNA-dependent RNA polymerase IV (aka RNA polymerase D). The NRPD2 protein is found at nuclear foci that overlap or are adjacent to chromocentromeres but are not fully coincident with chromocentromeres. The loss of NRPD2 leads to the loss of cytosine methylation at pericentromeric 5S genes and AtSN1 retroelements but has no discernible effect on centromere repeat methylation. This suggests that Pol IV primarily affects facultative heterochromatin rather than constitutive heterochromatin.
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Identifiers

Identifier Name
aliasOCP1
aliasOVEREXPRESSOR OF CATIONIC PEROXIDASE 1
aliasnuclear RNA polymerase D2A
aliasDRD2
aliasDMS2
aliasNRPE2
aliasNRPD2A
aliasDEFECTIVE IN MERISTEM SILENCING 2
aliasNRPD2
uniprotQ9LK40

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Biological Process

GO termEvidence(s)ProviderDescriptionSource
GO:0006351IEA, ISSUniProttranscription, DNA-templated1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
GO:0031047IMPGene Ontologygene silencing by RNA1
GO:0006306IDA, IMP, UniProtDNA methylation1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
GO:0030422IMP, IGIUniProtproduction of siRNA involved in RNA interference1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
GO:0035194IMPGene Ontologyposttranscriptional gene silencing by RNA1
GO:0050776IMPUniProtregulation of immune response1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
GO:0050832IMPUniProtdefense response to fungus1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
GO:0006355IEAUniProtregulation of transcription, DNA-dependent1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17

Molecular Function

GO termEvidence(s)ProviderDescriptionSource
GO:0003677IEA, ISSUniProtDNA binding1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
GO:0003899ISS, IEA, UniProtDNA-directed RNA polymerase activity1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
GO:0005515IPIGene Ontologyprotein binding1
GO:0032549IEAUniProtribonucleoside binding1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17
GO:0046872IEAUniProtmetal ion binding1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17
GO:0016779IEAPLAZA Homologynucleotidyltransferase activityHOM03D000564
GO:0034062IEAPLAZA HomologyRNA polymerase activityHOM03D000564

Cellular Component

GO termEvidence(s)ProviderDescriptionSource
GO:0005634IDA, ISMGene Ontologynucleus1 2
GO:0000418IDA, IPI, UniProtDNA-directed RNA polymerase IV complex1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
GO:0005720IDAUniProtnuclear heterochromatin1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18
GO:0000419IDA, IPI, UniProtDNA-directed RNA polymerase V complex1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
GO:0030880IPIGene OntologyRNA polymerase complex1
GO:0016020ISOPLAZA Tree-based OrthologymembraneAT3G18090

Color Legend

Experimental Evidence
Electronic Evidence
Computational Reviewed Evidence
GO Sources:   Primary     Orthology     Homology  
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InterPro Description
IPR007642RNA polymerase Rpb2, domain 2
IPR007120DNA-directed RNA polymerase, subunit 2, domain 6
IPR007641RNA polymerase Rpb2, domain 7
IPR015712DNA-directed RNA polymerase, subunit 2
IPR007646RNA polymerase Rpb2, domain 4
IPR007645RNA polymerase Rpb2, domain 3
IPR007647RNA polymerase Rpb2, domain 5
IPR007121RNA polymerase, beta subunit, conserved site
IPR014724RNA polymerase Rpb2, OB-fold
IPR007644RNA polymerase, beta subunit, protrusion

Mapman id Description
27.2RNA.transcription
No SignalP domains detected for this gene.