AMTR_s00025p00248060 (SIGD, SIG4,...)

Aliases : SIGD, SIG4, evm_27.TU.AmTr_v1.0_scaffold00025.401

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

Gene families : OG0000565 (OrthoFinder output from all 47 species) Phylogenetic Tree(s): OG0000565_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: AMTR_s00025p00248060
Cluster	HCCA: Cluster_102

Target	Alias	Description	ECC score	Gene Family Method
AT1G08540	ATSIG1, SIGB,...	RNApolymerase sigma subunit 2	0.05	OrthoFinder output from all 47 species
AT2G36990	SIGF, SIG6,...	RNApolymerase sigma-subunit F	0.05	OrthoFinder output from all 47 species
AT5G13730	SIGD, SIG4	sigma factor 4	0.03	OrthoFinder output from all 47 species
Adi_g022157	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Aev_g01395	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Ala_g02431	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Ala_g12116	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Ala_g19265	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Als_g20576	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Aob_g09016	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Aob_g09018	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Aob_g09050	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.06	OrthoFinder output from all 47 species
Aop_g22063	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Aspi01Gene07233.t1	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Azfi_s0004.g008766	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Azfi_s0012.g013021	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Azfi_s0068.g036420	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Cba_g03997	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Ceric.12G082200.1	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Ceric.34G066500.1	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Dcu_g03021	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.05	OrthoFinder output from all 47 species
Dcu_g05693	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.09	OrthoFinder output from all 47 species
Dcu_g09876	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Dde_g23470	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.05	OrthoFinder output from all 47 species
Ehy_g06928	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Ehy_g07794	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.05	OrthoFinder output from all 47 species
Ehy_g08589	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.07	OrthoFinder output from all 47 species
Ehy_g12113	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.05	OrthoFinder output from all 47 species
Ehy_g14118	SIGF, SIG6,...	basal Sigma-type transcription factor & original...	0.05	OrthoFinder output from all 47 species
Ehy_g20636	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.05	OrthoFinder output from all 47 species
GSVIVT01019326001	ATSIG1, SIGB,...	RNA biosynthesis.organelle...	0.08	OrthoFinder output from all 47 species
GSVIVT01024261001	SIGB, SIG2,...	RNA biosynthesis.organelle...	0.05	OrthoFinder output from all 47 species
GSVIVT01025717001	SIGF, SIG6,...	RNA biosynthesis.organelle...	0.1	OrthoFinder output from all 47 species
GSVIVT01032193001	SIGD, SIG4	RNA biosynthesis.organelle...	0.08	OrthoFinder output from all 47 species
GSVIVT01035330001	SIGC, SIG3	RNA biosynthesis.organelle...	0.05	OrthoFinder output from all 47 species
Gb_23845	ATSIG1, SIGB,...	basal transcription factor (Sigma)	0.02	OrthoFinder output from all 47 species
Gb_37602	ATSIG1, SIGB,...	basal transcription factor (Sigma)	0.03	OrthoFinder output from all 47 species
LOC_Os03g16430.1	ATSIG1, SIGB,...	basal transcription factor (Sigma)	0.05	OrthoFinder output from all 47 species
LOC_Os05g51150.1	SIGC, SIG3,...	basal transcription factor (Sigma)	0.04	OrthoFinder output from all 47 species
LOC_Os08g06630.1	SIGB, SIG2,...	basal transcription factor (Sigma)	0.04	OrthoFinder output from all 47 species
LOC_Os08g14450.1	SIGF, SIG6,...	basal transcription factor (Sigma)	0.04	OrthoFinder output from all 47 species
Len_g00672	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Len_g27826	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Mp7g15030.1	SIGB, SIG2,...	basal transcription factor (Sigma)	0.04	OrthoFinder output from all 47 species
Msp_g07421	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Msp_g08661	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Msp_g08662	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Nbi_g13789	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Nbi_g21262	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Ore_g08024	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Ore_g33804	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Pir_g00589	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.06	OrthoFinder output from all 47 species
Pir_g12897	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Pir_g64419	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Pnu_g07253	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Ppi_g07492	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Sacu_v1.1_s0017.g007071	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Sacu_v1.1_s0161.g023922	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.05	OrthoFinder output from all 47 species
Sacu_v1.1_s0198.g025553	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Sam_g19255	No alias	basal Sigma-type transcription factor & original...	0.02	OrthoFinder output from all 47 species
Smo117159	ATSIG1, SIGB,...	RNA biosynthesis.organelle...	0.03	OrthoFinder output from all 47 species
Solyc01g081490.3.1	ATSIG1, SIGB,...	basal transcription factor (Sigma)	0.04	OrthoFinder output from all 47 species
Solyc03g097320.3.1	SIGB, SIG2,...	basal transcription factor (Sigma)	0.05	OrthoFinder output from all 47 species
Solyc06g072710.3.1	SIGB, SIG2,...	basal transcription factor (Sigma)	0.03	OrthoFinder output from all 47 species
Solyc08g065970.3.1	SIGC, SIG3,...	basal transcription factor (Sigma)	0.03	OrthoFinder output from all 47 species
Solyc09g008040.3.1	SIGF, SIG6,...	basal transcription factor (Sigma)	0.03	OrthoFinder output from all 47 species
Spa_g05515	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.03	OrthoFinder output from all 47 species
Spa_g13112	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Spa_g16166	ATSIG1, SIGB,...	basal Sigma-type transcription factor & original...	0.04	OrthoFinder output from all 47 species
Tin_g06059	SIGB, SIG2,...	basal Sigma-type transcription factor & original...	0.06	OrthoFinder output from all 47 species
Zm00001e001198_P005	ATSIG1, SIGB,...	basal transcription factor (Sigma)	0.06	OrthoFinder output from all 47 species
Zm00001e011616_P008	SIGF, SIG6,...	basal transcription factor (Sigma)	0.02	OrthoFinder output from all 47 species
Zm00001e021420_P001	ATSIG1, SIGB,...	basal transcription factor (Sigma)	0.06	OrthoFinder output from all 47 species
Zm00001e021683_P001	SIGB, SIG2,...	basal transcription factor (Sigma)	0.06	OrthoFinder output from all 47 species
Zm00001e032586_P001	SIGC, SIG3,...	basal transcription factor (Sigma)	0.02	OrthoFinder output from all 47 species

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 DNA-templated transcription	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:2001141	regulation of RNA biosynthetic process	None	Extended

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Type	GO Term	Name	Evidence	Source
MF	GO:0003755	peptidyl-prolyl cis-trans isomerase activity	IEP	HCCA
BP	GO:0006790	sulfur compound metabolic process	IEP	HCCA
CC	GO:0009507	chloroplast	IEP	HCCA
CC	GO:0009536	plastid	IEP	HCCA
BP	GO:0016226	iron-sulfur cluster assembly	IEP	HCCA
MF	GO:0016772	transferase activity, transferring phosphorus-containing groups	IEP	HCCA
MF	GO:0016859	cis-trans isomerase activity	IEP	HCCA
BP	GO:0022607	cellular component assembly	IEP	HCCA
BP	GO:0031163	metallo-sulfur cluster assembly	IEP	HCCA
MF	GO:0046422	violaxanthin de-epoxidase activity	IEP	HCCA
MF	GO:0051536	iron-sulfur cluster binding	IEP	HCCA
MF	GO:0051540	metal cluster binding	IEP	HCCA

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 (SIGD, SIG4,...)

Expression Profile

Co-expression Networks

Expression Context Conservation (ECC)

Functional Annotation