AMTR_s00001p00152770 (evm_27.TU.AmTr_v1.0_sc...)

Aliases : evm_27.TU.AmTr_v1.0_scaffold00001.137

Description : RNA biosynthesis.DNA-dependent RNA polymerase (Pol) complexes.Pol II catalytic subunits.subunit 1

Gene families : OG0000599 (Archaeplastida) Phylogenetic Tree(s): OG0000599_tree ,
OG_05_0005403 (LandPlants) Phylogenetic Tree(s): OG_05_0005403_tree ,
OG_06_0005891 (SeedPlants) Phylogenetic Tree(s): OG_06_0005891_tree

Sequence : coding (download), protein (download)

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

Type	Description	Actions
Neighborhood	HRR: AMTR_s00001p00152770
Cluster	HCCA: Cluster_27

Target	Alias	Description	ECC score	Gene Family Method
AT4G35800	RNA_POL_II_LSRNA_...	RNA polymerase II large subunit	0.15	Archaeplastida
Cpa\|evm.model.tig00022075.5	No alias	DNA-directed RNA polymerase III subunit 1 OS=Arabidopsis thaliana	0.03	Archaeplastida
Cpa\|evm.model.tig00022075.6	No alias	DNA-directed RNA polymerase III subunit 1 OS=Arabidopsis thaliana	0.07	Archaeplastida
GSVIVT01008740001	No alias	RNA biosynthesis.DNA-dependent RNA polymerase (Pol)...	0.07	Archaeplastida
Gb_06029	No alias	subunit 1 of Pol II RNA polymerase	0.05	Archaeplastida
Gb_33197	No alias	subunit 1 of Pol II RNA polymerase	0.13	Archaeplastida
LOC_Os02g05880.1	No alias	subunit 1 of Pol V RNA polymerase	0.02	Archaeplastida
LOC_Os05g05860.1	No alias	subunit 1 of Pol II RNA polymerase	0.03	Archaeplastida
MA_10436091g0010	No alias	DNA-directed RNA polymerase III subunit 1 OS=Arabidopsis...	0.04	Archaeplastida
MA_8544g0010	No alias	subunit 1 of Pol II RNA polymerase	0.05	Archaeplastida
Mp4g14340.1	No alias	subunit 1 of Pol II RNA polymerase	0.03	Archaeplastida
Pp3c15_5270V3.1	No alias	nuclear RNA polymerase D1B	0.06	Archaeplastida
Pp3c17_4860V3.1	No alias	nuclear RNA polymerase C1	0.03	Archaeplastida
Pp3c1_32300V3.1	No alias	RNA polymerase II large subunit	0.07	Archaeplastida
Smo110201	No alias	RNA biosynthesis.DNA-dependent RNA polymerase (Pol)...	0.03	Archaeplastida
Zm00001e007729_P001	No alias	subunit 1 of Pol III RNA polymerase	0.02	Archaeplastida
Zm00001e040236_P001	No alias	subunit 1 of Pol II RNA polymerase	0.03	Archaeplastida

Type	GO Term	Name	Evidence	Source
CC	GO:0000428	DNA-directed RNA polymerase complex	None	Extended
MF	GO:0003674	molecular_function	None	Extended
MF	GO:0003676	nucleic acid binding	None	Extended
MF	GO:0003677	DNA binding	IEA	Interproscan
MF	GO:0003824	catalytic activity	None	Extended
MF	GO:0003899	DNA-directed 5'-3' RNA polymerase activity	IEA	Interproscan
MF	GO:0005488	binding	None	Extended
CC	GO:0005575	cellular_component	None	Extended
CC	GO:0005665	RNA polymerase II, core complex	IEA	Interproscan
BP	GO:0006139	nucleobase-containing compound metabolic process	None	Extended
BP	GO:0006351	transcription, DNA-templated	IEA	Interproscan
BP	GO:0006366	transcription by RNA polymerase II	IEA	Interproscan
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
CC	GO:0030880	RNA polymerase complex	None	Extended
BP	GO:0032774	RNA biosynthetic process	None	Extended
CC	GO:0032991	protein-containing complex	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
CC	GO:0044422	organelle part	None	Extended
CC	GO:0044424	intracellular part	None	Extended
CC	GO:0044428	nuclear part	None	Extended
CC	GO:0044446	intracellular organelle part	None	Extended
CC	GO:0044451	nucleoplasm part	None	Extended
CC	GO:0044464	cell part	None	Extended
BP	GO:0046483	heterocycle metabolic process	None	Extended
CC	GO:0055029	nuclear DNA-directed RNA polymerase complex	None	Extended
CC	GO:0061695	transferase complex, transferring phosphorus-containing groups	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
CC	GO:1902494	catalytic complex	None	Extended
CC	GO:1990234	transferase complex	None	Extended

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Type	GO Term	Name	Evidence	Source
BP	GO:0000375	RNA splicing, via transesterification reactions	IEP	Neighborhood
BP	GO:0000377	RNA splicing, via transesterification reactions with bulged adenosine as nucleophile	IEP	Neighborhood
BP	GO:0000398	mRNA splicing, via spliceosome	IEP	Neighborhood
MF	GO:0003723	RNA binding	IEP	Neighborhood
MF	GO:0003924	GTPase activity	IEP	Neighborhood
MF	GO:0003964	RNA-directed DNA polymerase activity	IEP	Neighborhood
MF	GO:0003993	acid phosphatase activity	IEP	Neighborhood
MF	GO:0004386	helicase activity	IEP	Neighborhood
MF	GO:0005515	protein binding	IEP	Neighborhood
CC	GO:0005634	nucleus	IEP	Neighborhood
CC	GO:0005737	cytoplasm	IEP	Neighborhood
CC	GO:0005852	eukaryotic translation initiation factor 3 complex	IEP	Neighborhood
BP	GO:0006278	RNA-dependent DNA biosynthetic process	IEP	Neighborhood
BP	GO:0006357	regulation of transcription by RNA polymerase II	IEP	Neighborhood
BP	GO:0006396	RNA processing	IEP	Neighborhood
BP	GO:0006397	mRNA processing	IEP	Neighborhood
BP	GO:0006606	protein import into nucleus	IEP	Neighborhood
BP	GO:0006886	intracellular protein transport	IEP	Neighborhood
BP	GO:0006887	exocytosis	IEP	Neighborhood
BP	GO:0006913	nucleocytoplasmic transport	IEP	Neighborhood
MF	GO:0008026	ATP-dependent helicase activity	IEP	Neighborhood
BP	GO:0008104	protein localization	IEP	Neighborhood
BP	GO:0008380	RNA splicing	IEP	Neighborhood
BP	GO:0015031	protein transport	IEP	Neighborhood
BP	GO:0015833	peptide transport	IEP	Neighborhood
BP	GO:0016071	mRNA metabolic process	IEP	Neighborhood
BP	GO:0016192	vesicle-mediated transport	IEP	Neighborhood
MF	GO:0016462	pyrophosphatase activity	IEP	Neighborhood
BP	GO:0016569	covalent chromatin modification	IEP	Neighborhood
BP	GO:0016570	histone modification	IEP	Neighborhood
CC	GO:0016592	mediator complex	IEP	Neighborhood
MF	GO:0016817	hydrolase activity, acting on acid anhydrides	IEP	Neighborhood
MF	GO:0016818	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	IEP	Neighborhood
BP	GO:0017038	protein import	IEP	Neighborhood
MF	GO:0017111	nucleoside-triphosphatase activity	IEP	Neighborhood
BP	GO:0022406	membrane docking	IEP	Neighborhood
BP	GO:0032940	secretion by cell	IEP	Neighborhood
BP	GO:0033036	macromolecule localization	IEP	Neighborhood
BP	GO:0033365	protein localization to organelle	IEP	Neighborhood
BP	GO:0034504	protein localization to nucleus	IEP	Neighborhood
BP	GO:0034613	cellular protein localization	IEP	Neighborhood
BP	GO:0042886	amide transport	IEP	Neighborhood
CC	GO:0043227	membrane-bounded organelle	IEP	Neighborhood
CC	GO:0043231	intracellular membrane-bounded organelle	IEP	Neighborhood
BP	GO:0045184	establishment of protein localization	IEP	Neighborhood
BP	GO:0046903	secretion	IEP	Neighborhood
BP	GO:0046907	intracellular transport	IEP	Neighborhood
BP	GO:0048278	vesicle docking	IEP	Neighborhood
BP	GO:0051169	nuclear transport	IEP	Neighborhood
BP	GO:0051170	import into nucleus	IEP	Neighborhood
BP	GO:0051640	organelle localization	IEP	Neighborhood
BP	GO:0051641	cellular localization	IEP	Neighborhood
BP	GO:0051649	establishment of localization in cell	IEP	Neighborhood
MF	GO:0070035	purine NTP-dependent helicase activity	IEP	Neighborhood
BP	GO:0070727	cellular macromolecule localization	IEP	Neighborhood
BP	GO:0071702	organic substance transport	IEP	Neighborhood
BP	GO:0071705	nitrogen compound transport	IEP	Neighborhood
BP	GO:0071897	DNA biosynthetic process	IEP	Neighborhood
BP	GO:0072594	establishment of protein localization to organelle	IEP	Neighborhood
BP	GO:0140056	organelle localization by membrane tethering	IEP	Neighborhood

InterPro domains	Description	Start	Stop
IPR007083	RNA_pol_Rpb1_4	717	821
IPR007066	RNA_pol_Rpb1_3	527	690
IPR007081	RNA_pol_Rpb1_5	828	1418
IPR000722	RNA_pol_asu	355	523
IPR007073	RNA_pol_Rpb1_7	1163	1297
IPR000684	RNA_pol_II_repeat_euk	1553	1566
IPR000684	RNA_pol_II_repeat_euk	1817	1829
IPR000684	RNA_pol_II_repeat_euk	1721	1734
IPR000684	RNA_pol_II_repeat_euk	1679	1692
IPR000684	RNA_pol_II_repeat_euk	1707	1720
IPR000684	RNA_pol_II_repeat_euk	1665	1678
IPR000684	RNA_pol_II_repeat_euk	1637	1650
IPR000684	RNA_pol_II_repeat_euk	1595	1608
IPR000684	RNA_pol_II_repeat_euk	1693	1706
IPR000684	RNA_pol_II_repeat_euk	1728	1741
IPR000684	RNA_pol_II_repeat_euk	1651	1664
IPR000684	RNA_pol_II_repeat_euk	1567	1580
IPR000684	RNA_pol_II_repeat_euk	1775	1788
IPR000684	RNA_pol_II_repeat_euk	1581	1594
IPR000684	RNA_pol_II_repeat_euk	1609	1622
IPR000684	RNA_pol_II_repeat_euk	1623	1636
IPR007080	RNA_pol_Rpb1_1	14	353
IPR007075	RNA_pol_Rpb1_6	894	1078

External Links

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AMTR_s00001p00152770 (evm_27.TU.AmTr_v1.0_sc...)

Expression Profile

Co-expression Networks

Expression Context Conservation (ECC)

Functional Annotation