AMTR_s00011p00266100 (evm_27.TU.AmTr_v1.0_sc...)

Aliases : evm_27.TU.AmTr_v1.0_scaffold00011.228

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

Gene families : OG0000365 (Archaeplastida) Phylogenetic Tree(s): OG0000365_tree ,
OG_05_0003010 (LandPlants) Phylogenetic Tree(s): OG_05_0003010_tree ,
OG_06_0004376 (SeedPlants) Phylogenetic Tree(s): OG_06_0004376_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_s00011p00266100
Cluster	HCCA: Cluster_153

Target	Alias	Description	ECC score	Gene Family Method
AT1G08540	ATSIG1, SIGB,...	RNApolymerase sigma subunit 2	0.08	Archaeplastida
AT2G36990	SIGF, SIG6,...	RNApolymerase sigma-subunit F	0.1	Archaeplastida
AT3G53920	SIGC, SIG3	RNApolymerase sigma-subunit C	0.02	Archaeplastida
Cpa\|evm.model.tig00000842.1	No alias	RNA biosynthesis.organelle...	0.03	Archaeplastida
GSVIVT01019326001	No alias	RNA biosynthesis.organelle...	0.06	Archaeplastida
GSVIVT01024261001	No alias	RNA biosynthesis.organelle...	0.07	Archaeplastida
GSVIVT01025717001	No alias	RNA biosynthesis.organelle...	0.06	Archaeplastida
GSVIVT01032193001	No alias	RNA biosynthesis.organelle...	0.05	Archaeplastida
GSVIVT01035330001	No alias	RNA biosynthesis.organelle...	0.05	Archaeplastida
Gb_03878	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
Gb_05480	No alias	no hits & (original description: none)	0.02	Archaeplastida
Gb_37602	No alias	basal transcription factor (Sigma)	0.07	Archaeplastida
LOC_Os03g16430.1	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
LOC_Os05g50930.1	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
LOC_Os05g51150.1	No alias	basal transcription factor (Sigma)	0.02	Archaeplastida
LOC_Os08g06630.1	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
LOC_Os08g14450.1	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
LOC_Os11g26160.1	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
MA_10211749g0010	No alias	no hits & (original description: none)	0.02	Archaeplastida
MA_10429585g0010	No alias	basal transcription factor (Sigma)	0.05	Archaeplastida
Mp4g13380.1	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
Mp7g15030.1	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
Pp3c14_22330V3.1	No alias	RNApolymerase sigma subunit 2	0.03	Archaeplastida
Pp3c14_4440V3.1	No alias	sigma factor A	0.03	Archaeplastida
Pp3c1_36580V3.1	No alias	RNApolymerase sigma subunit 2	0.03	Archaeplastida
Smo117159	No alias	RNA biosynthesis.organelle...	0.07	Archaeplastida
Smo266972	No alias	RNA biosynthesis.organelle...	0.02	Archaeplastida
Solyc01g081490.3.1	No alias	basal transcription factor (Sigma)	0.09	Archaeplastida
Solyc03g097320.3.1	No alias	basal transcription factor (Sigma)	0.08	Archaeplastida
Solyc06g072710.3.1	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
Solyc08g065970.3.1	No alias	basal transcription factor (Sigma)	0.06	Archaeplastida
Solyc09g008040.3.1	No alias	basal transcription factor (Sigma)	0.09	Archaeplastida
Zm00001e001198_P005	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
Zm00001e011616_P008	No alias	basal transcription factor (Sigma)	0.04	Archaeplastida
Zm00001e021420_P001	No alias	basal transcription factor (Sigma)	0.09	Archaeplastida
Zm00001e021683_P001	No alias	basal transcription factor (Sigma)	0.06	Archaeplastida
Zm00001e032586_P001	No alias	basal transcription factor (Sigma)	0.03	Archaeplastida
Zm00001e040174_P003	No alias	no hits & (original description: none)	0.04	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:0000049	tRNA binding	IEP	Neighborhood
MF	GO:0000166	nucleotide binding	IEP	Neighborhood
MF	GO:0001882	nucleoside binding	IEP	Neighborhood
MF	GO:0001883	purine nucleoside binding	IEP	Neighborhood
MF	GO:0002161	aminoacyl-tRNA editing activity	IEP	Neighborhood
MF	GO:0003723	RNA binding	IEP	Neighborhood
MF	GO:0003747	translation release factor activity	IEP	Neighborhood
MF	GO:0004386	helicase activity	IEP	Neighborhood
MF	GO:0004556	alpha-amylase activity	IEP	Neighborhood
MF	GO:0004645	phosphorylase activity	IEP	Neighborhood
MF	GO:0004721	phosphoprotein phosphatase activity	IEP	Neighborhood
MF	GO:0004812	aminoacyl-tRNA ligase activity	IEP	Neighborhood
MF	GO:0004826	phenylalanine-tRNA ligase activity	IEP	Neighborhood
MF	GO:0004853	uroporphyrinogen decarboxylase activity	IEP	Neighborhood
MF	GO:0005524	ATP binding	IEP	Neighborhood
MF	GO:0005525	GTP binding	IEP	Neighborhood
CC	GO:0005737	cytoplasm	IEP	Neighborhood
BP	GO:0006399	tRNA metabolic process	IEP	Neighborhood
BP	GO:0006415	translational termination	IEP	Neighborhood
BP	GO:0006418	tRNA aminoacylation for protein translation	IEP	Neighborhood
BP	GO:0006432	phenylalanyl-tRNA aminoacylation	IEP	Neighborhood
BP	GO:0006470	protein dephosphorylation	IEP	Neighborhood
BP	GO:0006520	cellular amino acid metabolic process	IEP	Neighborhood
BP	GO:0006772	thiamine metabolic process	IEP	Neighborhood
BP	GO:0006779	porphyrin-containing compound biosynthetic process	IEP	Neighborhood
MF	GO:0008026	ATP-dependent helicase activity	IEP	Neighborhood
MF	GO:0008079	translation termination factor activity	IEP	Neighborhood
MF	GO:0008135	translation factor activity, RNA binding	IEP	Neighborhood
MF	GO:0008138	protein tyrosine/serine/threonine phosphatase activity	IEP	Neighborhood
MF	GO:0008144	drug binding	IEP	Neighborhood
MF	GO:0008184	glycogen phosphorylase activity	IEP	Neighborhood
BP	GO:0009228	thiamine biosynthetic process	IEP	Neighborhood
MF	GO:0009975	cyclase activity	IEP	Neighborhood
MF	GO:0009976	tocopherol cyclase activity	IEP	Neighborhood
CC	GO:0015934	large ribosomal subunit	IEP	Neighborhood
MF	GO:0016149	translation release factor activity, codon specific	IEP	Neighborhood
MF	GO:0016160	amylase activity	IEP	Neighborhood
BP	GO:0016311	dephosphorylation	IEP	Neighborhood
MF	GO:0016462	pyrophosphatase activity	IEP	Neighborhood
MF	GO:0016787	hydrolase activity	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
MF	GO:0016874	ligase activity	IEP	Neighborhood
MF	GO:0016875	ligase activity, forming carbon-oxygen bonds	IEP	Neighborhood
MF	GO:0016887	ATPase activity	IEP	Neighborhood
BP	GO:0017038	protein import	IEP	Neighborhood
MF	GO:0017076	purine nucleotide binding	IEP	Neighborhood
MF	GO:0017111	nucleoside-triphosphatase activity	IEP	Neighborhood
MF	GO:0019001	guanyl nucleotide binding	IEP	Neighborhood
BP	GO:0022411	cellular component disassembly	IEP	Neighborhood
MF	GO:0030554	adenyl nucleotide binding	IEP	Neighborhood
MF	GO:0032549	ribonucleoside binding	IEP	Neighborhood
MF	GO:0032550	purine ribonucleoside binding	IEP	Neighborhood
MF	GO:0032553	ribonucleotide binding	IEP	Neighborhood
MF	GO:0032555	purine ribonucleotide binding	IEP	Neighborhood
MF	GO:0032559	adenyl ribonucleotide binding	IEP	Neighborhood
MF	GO:0032561	guanyl ribonucleotide binding	IEP	Neighborhood
BP	GO:0032984	protein-containing complex disassembly	IEP	Neighborhood
BP	GO:0034660	ncRNA metabolic process	IEP	Neighborhood
MF	GO:0035639	purine ribonucleoside triphosphate binding	IEP	Neighborhood
MF	GO:0036094	small molecule binding	IEP	Neighborhood
MF	GO:0042623	ATPase activity, coupled	IEP	Neighborhood
BP	GO:0042723	thiamine-containing compound metabolic process	IEP	Neighborhood
BP	GO:0042724	thiamine-containing compound biosynthetic process	IEP	Neighborhood
BP	GO:0043038	amino acid activation	IEP	Neighborhood
BP	GO:0043039	tRNA aminoacylation	IEP	Neighborhood
MF	GO:0043167	ion binding	IEP	Neighborhood
MF	GO:0043168	anion binding	IEP	Neighborhood
BP	GO:0043624	cellular protein complex disassembly	IEP	Neighborhood
CC	GO:0044391	ribosomal subunit	IEP	Neighborhood
MF	GO:0070035	purine NTP-dependent helicase activity	IEP	Neighborhood
MF	GO:0070403	NAD+ binding	IEP	Neighborhood
MF	GO:0097367	carbohydrate derivative binding	IEP	Neighborhood
MF	GO:0140098	catalytic activity, acting on RNA	IEP	Neighborhood
MF	GO:0140101	catalytic activity, acting on a tRNA	IEP	Neighborhood
MF	GO:1901265	nucleoside phosphate binding	IEP	Neighborhood

InterPro domains	Description	Start	Stop
IPR007630	RNA_pol_sigma70_r4	434	482
IPR007624	RNA_pol_sigma70_r3	337	408
IPR007627	RNA_pol_sigma70_r2	259	327

External Links

No external refs found!

AMTR_s00011p00266100 (evm_27.TU.AmTr_v1.0_sc...)

Expression Profile

Co-expression Networks

Expression Context Conservation (ECC)

Functional Annotation