Zm00001d002125 (GRMZM2G054225)

Aliases : GRMZM2G054225

Description : 27.2 RNA.transcription 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)

Gene families : OG_01_0000522 (Gene family) Phylogenetic Tree(s): OG0000522_tree

Sequence : coding (download), protein (download)

Note:Only the main profile, including all conditions, is shown. Additional statistics and tissue specific profiles are available here.

Type Description Actions
Neighborhood HRR network (cutoff 100): Zm00001d002125
Cluster HCCA cluster: Cluster_189

Target Alias Description ECC score Gene Family Method Actions
AT3G18090 NRPD2B nuclear RNA polymerase D2B 0.04 Gene family
AT3G23780 DRD2, NRPE2,... nuclear RNA polymerase D2A 0.04 Gene family
GSVIVT01020543001 No alias 27.2 RNA.transcription Encodes the unique second-largest... 0.02 Gene family
GSVIVT01035963001 No alias 27.2 RNA.transcription This gene encodes the second... 0.02 Gene family
LOC_Os04g54840 Os04g0641000 27.2 RNA.transcription This gene encodes the second... 0.04 Gene family
Solyc03g110885.1.1 Solyc03g110885.1 27.2 RNA.transcription This gene encodes the second... 0.06 Gene family
Solyc10g078860.2.1 Solyc10g078860.2 27.2 RNA.transcription Encodes a subunit of RNA... 0.03 Gene family

Type GO Term Name Evidence Source
MF GO:0003677 DNA binding IEA InterProScan
MF GO:0003899 DNA-directed 5'-3' RNA polymerase activity IEA InterProScan
BP GO:0006351 transcription, DNA-templated IEA InterProScan
Type GO Term Name Evidence Source

No Predicted GO terms available for this sequence

InterPro domains Description Start Stop
IPR007645 RNA_pol_Rpb2_3 529 590
IPR007641 RNA_pol_Rpb2_7 1128 1226
IPR007120 DNA-dir_RNAP_su2_dom 756 1126
IPR007644 RNA_pol_bsu_protrusion 103 500
IPR007642 RNA_pol_Rpb2_2 320 452
IPR007647 RNA_pol_Rpb2_5 701 747
IPR007646 RNA_pol_Rpb2_4 625 686
No external refs found!