AMTR_s00025p00248060 (evm_27.TU.AmTr_v1.0_sc...)

Aliases : evm_27.TU.AmTr_v1.0_scaffold00025.401

Description : RNA biosynthesis.organelle machineries.transcription.Sigma-type basal transcription factor

Gene families : OG0000365 (Archaeplastida) Phylogenetic Tree(s): OG0000365_tree ,
OG_05_0017242 (LandPlants) Phylogenetic Tree(s): OG_05_0017242_tree ,
OG_06_0016741 (SeedPlants) Phylogenetic Tree(s): OG_06_0016741_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_s00025p00248060
Cluster	HCCA: Cluster_153

Target	Alias	Description	ECC score	Gene Family Method
AMTR_s00011p00258380	evm_27.TU.AmTr_v1...	RNA biosynthesis.organelle...	0.04	Archaeplastida
AT1G08540	ATSIG1, SIGB,...	RNApolymerase sigma subunit 2	0.06	Archaeplastida
AT2G36990	SIGF, SIG6,...	RNApolymerase sigma-subunit F	0.05	Archaeplastida
AT5G13730	SIGD, SIG4	sigma factor 4	0.04	Archaeplastida
GSVIVT01019326001	No alias	RNA biosynthesis.organelle...	0.09	Archaeplastida
GSVIVT01024261001	No alias	RNA biosynthesis.organelle...	0.05	Archaeplastida
GSVIVT01025717001	No alias	RNA biosynthesis.organelle...	0.1	Archaeplastida
GSVIVT01032193001	No alias	RNA biosynthesis.organelle...	0.09	Archaeplastida
GSVIVT01035330001	No alias	RNA biosynthesis.organelle...	0.06	Archaeplastida
Gb_03878	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
Gb_37602	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
LOC_Os03g16430.1	No alias	basal transcription factor (Sigma)	0.06	Archaeplastida
LOC_Os05g50930.1	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
LOC_Os05g51150.1	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
LOC_Os08g06630.1	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
LOC_Os08g14450.1	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
MA_10429585g0010	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
MA_137876g0010	No alias	no hits & (original description: none)	0.05	Archaeplastida
Mp4g13380.1	No alias	basal transcription factor (Sigma)	0.02	Archaeplastida
Mp7g15030.1	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
Pp3c14_4440V3.1	No alias	sigma factor A	0.04	Archaeplastida
Pp3c1_36580V3.1	No alias	RNApolymerase sigma subunit 2	0.02	Archaeplastida
Smo117159	No alias	RNA biosynthesis.organelle...	0.03	Archaeplastida
Solyc01g081490.3.1	No alias	basal transcription factor (Sigma)	0.06	Archaeplastida
Solyc03g097320.3.1	No alias	basal transcription factor (Sigma)	0.06	Archaeplastida
Solyc06g072710.3.1	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
Solyc08g065970.3.1	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
Solyc09g008040.3.1	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
Zm00001e001198_P005	No alias	basal transcription factor (Sigma)	0.07	Archaeplastida
Zm00001e011616_P008	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
Zm00001e021420_P001	No alias	basal transcription factor (Sigma)	0.08	Archaeplastida
Zm00001e021683_P001	No alias	basal transcription factor (Sigma)	0.07	Archaeplastida
Zm00001e032586_P001	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
Zm00001e040174_P003	No alias	no hits & (original description: none)	0.08	Archaeplastida

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
MF	GO:0003700	DNA-binding transcription factor activity	IEA	Interproscan
MF	GO:0005488	binding	None	Extended
BP	GO:0006139	nucleobase-containing compound metabolic process	None	Extended
BP	GO:0006352	DNA-templated transcription, initiation	IEA	Interproscan
BP	GO:0006355	regulation of transcription, DNA-templated	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:0009889	regulation of biosynthetic process	None	Extended
BP	GO:0009987	cellular process	None	Extended
BP	GO:0010468	regulation of gene expression	None	Extended
BP	GO:0010556	regulation of macromolecule biosynthetic process	None	Extended
BP	GO:0016070	RNA metabolic process	None	Extended
MF	GO:0016987	sigma factor activity	IEA	Interproscan
BP	GO:0018130	heterocycle biosynthetic process	None	Extended
BP	GO:0019219	regulation of nucleobase-containing compound metabolic process	None	Extended
BP	GO:0019222	regulation of metabolic process	None	Extended
BP	GO:0019438	aromatic compound biosynthetic process	None	Extended
BP	GO:0031323	regulation of cellular metabolic process	None	Extended
BP	GO:0031326	regulation of cellular biosynthetic process	None	Extended
BP	GO:0032774	RNA biosynthetic process	None	Extended
BP	GO:0034641	cellular nitrogen compound metabolic 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:0044271	cellular nitrogen compound biosynthetic process	None	Extended
BP	GO:0046483	heterocycle metabolic process	None	Extended
BP	GO:0050789	regulation of biological process	None	Extended
BP	GO:0050794	regulation of cellular process	None	Extended
BP	GO:0051171	regulation of nitrogen compound metabolic process	None	Extended
BP	GO:0051252	regulation of RNA metabolic process	None	Extended
BP	GO:0060255	regulation of macromolecule metabolic process	None	Extended
BP	GO:0065007	biological regulation	None	Extended
BP	GO:0071704	organic substance metabolic process	None	Extended
BP	GO:0080090	regulation of primary metabolic process	None	Extended
BP	GO:0090304	nucleic acid metabolic process	None	Extended
MF	GO:0097159	organic cyclic compound binding	None	Extended
MF	GO:0140110	transcription regulator activity	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
BP	GO:1903506	regulation of nucleic acid-templated transcription	None	Extended
BP	GO:2000112	regulation of cellular macromolecule biosynthetic process	None	Extended
BP	GO:2001141	regulation of RNA biosynthetic process	None	Extended

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Type	GO Term	Name	Evidence	Source
MF	GO:0002161	aminoacyl-tRNA editing activity	IEP	Neighborhood
MF	GO:0003690	double-stranded DNA binding	IEP	Neighborhood
MF	GO:0003755	peptidyl-prolyl cis-trans isomerase activity	IEP	Neighborhood
BP	GO:0006298	mismatch repair	IEP	Neighborhood
BP	GO:0006457	protein folding	IEP	Neighborhood
BP	GO:0006553	lysine metabolic process	IEP	Neighborhood
MF	GO:0008839	4-hydroxy-tetrahydrodipicolinate reductase	IEP	Neighborhood
BP	GO:0009066	aspartate family amino acid metabolic process	IEP	Neighborhood
BP	GO:0009067	aspartate family amino acid biosynthetic process	IEP	Neighborhood
BP	GO:0009085	lysine biosynthetic process	IEP	Neighborhood
BP	GO:0009089	lysine biosynthetic process via diaminopimelate	IEP	Neighborhood
CC	GO:0009507	chloroplast	IEP	Neighborhood
CC	GO:0009521	photosystem	IEP	Neighborhood
CC	GO:0009522	photosystem I	IEP	Neighborhood
CC	GO:0009536	plastid	IEP	Neighborhood
CC	GO:0009538	photosystem I reaction center	IEP	Neighborhood
BP	GO:0015979	photosynthesis	IEP	Neighborhood
BP	GO:0016226	iron-sulfur cluster assembly	IEP	Neighborhood
MF	GO:0016628	oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor	IEP	Neighborhood
MF	GO:0016779	nucleotidyltransferase activity	IEP	Neighborhood
MF	GO:0016853	isomerase activity	IEP	Neighborhood
MF	GO:0016859	cis-trans isomerase activity	IEP	Neighborhood
MF	GO:0030976	thiamine pyrophosphate binding	IEP	Neighborhood
MF	GO:0030983	mismatched DNA binding	IEP	Neighborhood
BP	GO:0031163	metallo-sulfur cluster assembly	IEP	Neighborhood
BP	GO:0043648	dicarboxylic acid metabolic process	IEP	Neighborhood
CC	GO:0044436	thylakoid part	IEP	Neighborhood
MF	GO:0046422	violaxanthin de-epoxidase activity	IEP	Neighborhood
BP	GO:0046451	diaminopimelate metabolic process	IEP	Neighborhood
MF	GO:0051536	iron-sulfur cluster binding	IEP	Neighborhood
MF	GO:0051540	metal cluster binding	IEP	Neighborhood
MF	GO:1901681	sulfur compound binding	IEP	Neighborhood

InterPro domains	Description	Start	Stop
IPR007624	RNA_pol_sigma70_r3	296	370
IPR007627	RNA_pol_sigma70_r2	216	283
IPR007630	RNA_pol_sigma70_r4	382	435

External Links

No external refs found!

AMTR_s00025p00248060 (evm_27.TU.AmTr_v1.0_sc...)

Expression Profile

Co-expression Networks

Expression Context Conservation (ECC)

Functional Annotation