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- PSME_00021631-RA
PSME_00021631-RA
Description : (at3g23780 : 373.0) 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.; nuclear RNA polymerase D2A (NRPD2A); CONTAINS InterPro DOMAIN/s: DNA-directed RNA polymerase, subunit 2, domain 6 (InterPro:IPR007120), RNA polymerase Rpb2, domain 7 (InterPro:IPR007641), RNA polymerase, beta subunit, protrusion (InterPro:IPR007644), RNA polymerase Rpb2, domain 3 (InterPro:IPR007645), DNA-directed RNA polymerase, subunit 2 (InterPro:IPR015712), RNA polymerase Rpb2, domain 2 (InterPro:IPR007642), RNA polymerase Rpb2, domain 4 (InterPro:IPR007646), RNA polymerase, beta subunit, conserved site (InterPro:IPR007121), RNA polymerase Rpb2, domain 5 (InterPro:IPR007647); BEST Arabidopsis thaliana protein match is: nuclear RNA polymerase D2B (TAIR:AT3G18090.1). & (reliability: 746.0) & (original description: no original description)
Expression Profile
Attention: This gene has low abundance.
Note:Only the main profile, including all conditions, is shown. Additional statistics and tissue specific profiles are available here.
Co-expression Networks
Type | Description | Actions |
Neighborhood | Pseudotsuga release: PSME_00021631-RA | |
Cluster | HCCA clusters: Cluster_230 | |
Functional Annotation
Type | GO Term | Name | Evidence | Source |
MF | GO:0003674 | molecular_function | None | Extended |
MF | GO:0003676 | nucleic acid binding | None | Extended |
MF | GO:0003677 | DNA binding | IEA | InterProScan predictions |
MF | GO:0003824 | catalytic activity | None | Extended |
MF | GO:0003899 | DNA-directed 5'-3' RNA polymerase activity | IEA | InterProScan predictions |
MF | GO:0005488 | binding | None | Extended |
BP | GO:0006139 | nucleobase-containing compound metabolic process | None | Extended |
BP | GO:0006351 | transcription, DNA-templated | IEA | InterProScan predictions |
BP | GO:0006725 | cellular aromatic compound metabolic process | None | Extended |
BP | GO:0006807 | nitrogen compound metabolic process | None | Extended |
BP | GO:0008150 | biological_process | None | Extended |
BP | GO:0008152 | metabolic process | None | Extended |
BP | GO:0009058 | biosynthetic process | None | Extended |
BP | GO:0009059 | macromolecule biosynthetic process | None | Extended |
BP | GO:0009987 | cellular process | None | Extended |
BP | GO:0016070 | RNA metabolic process | None | Extended |
MF | GO:0016740 | transferase activity | None | Extended |
MF | GO:0016772 | transferase activity, transferring phosphorus-containing groups | None | Extended |
MF | GO:0016779 | nucleotidyltransferase activity | None | Extended |
BP | GO:0018130 | heterocycle biosynthetic process | None | Extended |
BP | GO:0019438 | aromatic compound biosynthetic process | None | Extended |
BP | GO:0032774 | RNA biosynthetic process | None | Extended |
MF | GO:0034062 | 5'-3' RNA polymerase activity | None | Extended |
BP | GO:0034641 | cellular nitrogen compound metabolic process | None | Extended |
BP | GO:0034645 | cellular macromolecule biosynthetic process | None | Extended |
BP | GO:0034654 | nucleobase-containing compound biosynthetic process | None | Extended |
BP | GO:0043170 | macromolecule metabolic process | None | Extended |
BP | GO:0044237 | cellular metabolic process | None | Extended |
BP | GO:0044238 | primary metabolic process | None | Extended |
BP | GO:0044249 | cellular biosynthetic process | None | Extended |
BP | GO:0044260 | cellular macromolecule metabolic process | None | Extended |
BP | GO:0044271 | cellular nitrogen compound biosynthetic process | None | Extended |
BP | GO:0046483 | heterocycle metabolic process | None | Extended |
BP | GO:0071704 | organic substance metabolic process | None | Extended |
BP | GO:0090304 | nucleic acid metabolic process | None | Extended |
MF | GO:0097159 | organic cyclic compound binding | None | Extended |
BP | GO:0097659 | nucleic acid-templated transcription | None | Extended |
MF | GO:0097747 | RNA polymerase activity | None | Extended |
MF | GO:0140098 | catalytic activity, acting on RNA | None | Extended |
BP | GO:1901360 | organic cyclic compound metabolic process | None | Extended |
BP | GO:1901362 | organic cyclic compound biosynthetic process | None | Extended |
MF | GO:1901363 | heterocyclic compound binding | None | Extended |
BP | GO:1901576 | organic substance biosynthetic process | None | Extended |
Type | GO Term | Name | Evidence | Source |
MF | GO:0003909 | DNA ligase activity | IEP | Predicted GO |
MF | GO:0003910 | DNA ligase (ATP) activity | IEP | Predicted GO |
BP | GO:0005985 | sucrose metabolic process | IEP | Predicted GO |
BP | GO:0005996 | monosaccharide metabolic process | IEP | Predicted GO |
BP | GO:0006310 | DNA recombination | IEP | Predicted GO |
MF | GO:0008270 | zinc ion binding | IEP | Predicted GO |
MF | GO:0016157 | sucrose synthase activity | IEP | Predicted GO |
MF | GO:0016597 | amino acid binding | IEP | Predicted GO |
MF | GO:0016743 | carboxyl- or carbamoyltransferase activity | IEP | Predicted GO |
MF | GO:0016886 | ligase activity, forming phosphoric ester bonds | IEP | Predicted GO |
BP | GO:0019321 | pentose metabolic process | IEP | Predicted GO |
BP | GO:0019566 | arabinose metabolic process | IEP | Predicted GO |
MF | GO:0031406 | carboxylic acid binding | IEP | Predicted GO |
MF | GO:0043169 | cation binding | IEP | Predicted GO |
MF | GO:0043177 | organic acid binding | IEP | Predicted GO |
BP | GO:0046373 | L-arabinose metabolic process | IEP | Predicted GO |
MF | GO:0046556 | alpha-L-arabinofuranosidase activity | IEP | Predicted GO |
MF | GO:0046872 | metal ion binding | IEP | Predicted GO |
MF | GO:0046914 | transition metal ion binding | IEP | Predicted GO |
MF | GO:0140097 | catalytic activity, acting on DNA | IEP | Predicted GO |
InterPro domains | Description | Start | Stop |
IPR007642 | RNA_pol_Rpb2_2 | 204 | 342 |
IPR007644 | RNA_pol_bsu_protrusion | 16 | 380 |