AT4G11130 (SMD1, RDR2)

Aliases : SMD1, RDR2

Description : RNA-dependent RNA polymerase 2

Gene families : OG0001039 (OrthoFinder output from all 47 species) Phylogenetic Tree(s): OG0001039_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: AT4G11130

Target	Alias	Description	ECC score	Gene Family Method
AMTR_s00088p00026960	SMD1, RDR2,...	RNA biosynthesis.siRNA biogenesis.RDR2 ssRNA polymerase	0.03	OrthoFinder output from all 47 species
Ala_g33594	SDE1, RDR6, SGS2	ssRNA polymerase *(RDR6) & original description: none	0.02	OrthoFinder output from all 47 species
Dde_g51705	ATRDRP1, RDR1	not classified & original description: none	0.02	OrthoFinder output from all 47 species
Ehy_g14066	ATRDRP1, RDR1	not classified & original description: none	0.02	OrthoFinder output from all 47 species
MA_10431382g0010	SDE1, RDR6, SGS2	Probable RNA-dependent RNA polymerase SHL2 OS=Oryza...	0.05	OrthoFinder output from all 47 species
MA_10436273g0010	SMD1, RDR2	RNA-dependent RNA polymerase 2 OS=Arabidopsis thaliana...	0.05	OrthoFinder output from all 47 species
MA_467439g0010	SMD1, RDR2	RNA-dependent RNA polymerase 2 OS=Arabidopsis thaliana...	0.03	OrthoFinder output from all 47 species
Pnu_g16856	ATRDRP1, RDR1	not classified & original description: none	0.02	OrthoFinder output from all 47 species
Sam_g09066	No alias	not classified & original description: none	0.03	OrthoFinder output from all 47 species
Solyc04g014870.3.1	SDE1, RDR6,...	ssRNA polymerase (RDR6)	0.07	OrthoFinder output from all 47 species
Tin_g06684	SMD1, RDR2	not classified & original description: none	0.02	OrthoFinder output from all 47 species

Type	GO Term	Name	Evidence	Source
BP	GO:0000375	RNA splicing, via transesterification reactions	None	Extended
BP	GO:0000377	RNA splicing, via transesterification reactions with bulged adenosine as nucleophile	None	Extended
BP	GO:0000398	mRNA splicing, via spliceosome	RCA	Interproscan
BP	GO:0002376	immune system process	None	Extended
MF	GO:0003674	molecular_function	None	Extended
MF	GO:0003824	catalytic activity	None	Extended
MF	GO:0003968	RNA-dependent RNA polymerase activity	ISS	Interproscan
CC	GO:0005575	cellular_component	None	Extended
CC	GO:0005634	nucleus	ISM	Interproscan
CC	GO:0005730	nucleolus	IDA	Interproscan
BP	GO:0006139	nucleobase-containing compound metabolic process	None	Extended
BP	GO:0006259	DNA metabolic process	None	Extended
BP	GO:0006304	DNA modification	None	Extended
BP	GO:0006305	DNA alkylation	None	Extended
BP	GO:0006306	DNA methylation	RCA	Interproscan
BP	GO:0006325	chromatin organization	None	Extended
BP	GO:0006338	chromatin remodeling	None	Extended
BP	GO:0006346	DNA methylation-dependent heterochromatin formation	RCA	Interproscan
BP	GO:0006355	regulation of DNA-templated transcription	RCA	Interproscan
BP	GO:0006396	RNA processing	None	Extended
BP	GO:0006397	mRNA processing	None	Extended
BP	GO:0006417	regulation of translation	None	Extended
BP	GO:0006725	cellular aromatic compound metabolic process	None	Extended
BP	GO:0006807	nitrogen compound metabolic process	None	Extended
BP	GO:0006950	response to stress	None	Extended
BP	GO:0006952	defense response	None	Extended
BP	GO:0006955	immune response	None	Extended
BP	GO:0007154	cell communication	None	Extended
BP	GO:0007267	cell-cell signaling	IMP	Interproscan
BP	GO:0007267	cell-cell signaling	RCA	Interproscan
BP	GO:0007389	pattern specification process	None	Extended
BP	GO:0008150	biological_process	None	Extended
BP	GO:0008152	metabolic process	None	Extended
BP	GO:0008380	RNA splicing	None	Extended
BP	GO:0009605	response to external stimulus	None	Extended
BP	GO:0009607	response to biotic stimulus	None	Extended
BP	GO:0009615	response to virus	None	Extended
BP	GO:0009616	RNAi-mediated antiviral immune response	RCA	Interproscan
BP	GO:0009620	response to fungus	None	Extended
BP	GO:0009799	specification of symmetry	None	Extended
BP	GO:0009855	determination of bilateral symmetry	RCA	Interproscan
BP	GO:0009889	regulation of biosynthetic process	None	Extended
BP	GO:0009890	negative regulation of biosynthetic process	None	Extended
BP	GO:0009891	positive regulation of biosynthetic process	None	Extended
BP	GO:0009892	negative regulation of metabolic process	None	Extended
BP	GO:0009893	positive regulation of metabolic process	None	Extended
BP	GO:0009894	regulation of catabolic process	None	Extended
BP	GO:0009896	positive regulation of catabolic process	None	Extended
BP	GO:0009987	cellular process	None	Extended
BP	GO:0010014	meristem initiation	RCA	Interproscan
BP	GO:0010073	meristem maintenance	RCA	Interproscan
BP	GO:0010267	ta-siRNA processing	RCA	Interproscan
BP	GO:0010468	regulation of gene expression	None	Extended
BP	GO:0010495	siRNA-mediated long-distance post-transcriptional gene silencing	IMP	Interproscan
BP	GO:0010556	regulation of macromolecule biosynthetic process	None	Extended
BP	GO:0010557	positive regulation of macromolecule biosynthetic process	None	Extended
BP	GO:0010558	negative regulation of macromolecule biosynthetic process	None	Extended
BP	GO:0010604	positive regulation of macromolecule metabolic process	None	Extended
BP	GO:0010605	negative regulation of macromolecule metabolic process	None	Extended
BP	GO:0010608	post-transcriptional regulation of gene expression	None	Extended
BP	GO:0010629	negative regulation of gene expression	None	Extended
BP	GO:0016043	cellular component organization	None	Extended
BP	GO:0016070	RNA metabolic process	None	Extended
BP	GO:0016071	mRNA metabolic process	None	Extended
BP	GO:0016441	post-transcriptional gene silencing	ISS	Interproscan
BP	GO:0016458	obsolete gene silencing	IMP	Interproscan
BP	GO:0016569	obsolete covalent chromatin modification	RCA	Interproscan
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:0017148	negative regulation of translation	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:0019538	protein metabolic process	None	Extended
BP	GO:0023052	signaling	None	Extended
BP	GO:0030422	siRNA processing	IMP	Interproscan
BP	GO:0030422	siRNA processing	RCA	Interproscan
BP	GO:0031047	RNA-mediated gene silencing	RCA	Interproscan
BP	GO:0031323	regulation of cellular metabolic process	None	Extended
BP	GO:0031324	negative regulation of cellular metabolic process	None	Extended
BP	GO:0031325	positive regulation of cellular metabolic process	None	Extended
BP	GO:0031326	regulation of cellular biosynthetic process	None	Extended
BP	GO:0031327	negative regulation of cellular biosynthetic process	None	Extended
BP	GO:0031328	positive regulation of cellular biosynthetic process	None	Extended
BP	GO:0031329	regulation of cellular catabolic process	None	Extended
BP	GO:0031331	positive regulation of cellular catabolic process	None	Extended
BP	GO:0031507	heterochromatin formation	None	Extended
BP	GO:0032259	methylation	None	Extended
BP	GO:0032501	multicellular organismal process	None	Extended
BP	GO:0032502	developmental process	None	Extended
MF	GO:0034062	5'-3' RNA polymerase activity	None	Extended
BP	GO:0034248	regulation of amide metabolic process	None	Extended
BP	GO:0034249	negative regulation of amide metabolic process	None	Extended
BP	GO:0034470	ncRNA processing	None	Extended
BP	GO:0034641	cellular nitrogen compound metabolic process	None	Extended
BP	GO:0034660	ncRNA metabolic process	None	Extended
BP	GO:0035194	RNA-mediated post-transcriptional gene silencing	None	Extended
BP	GO:0035196	miRNA processing	RCA	Interproscan
BP	GO:0036211	protein modification process	None	Extended
BP	GO:0040029	epigenetic regulation of gene expression	None	Extended
BP	GO:0043170	macromolecule metabolic process	None	Extended
BP	GO:0043207	response to external biotic stimulus	None	Extended
CC	GO:0043226	organelle	None	Extended
CC	GO:0043227	membrane-bounded organelle	None	Extended
CC	GO:0043228	non-membrane-bounded organelle	None	Extended
CC	GO:0043229	intracellular organelle	None	Extended
CC	GO:0043231	intracellular membrane-bounded organelle	None	Extended
CC	GO:0043232	intracellular non-membrane-bounded organelle	None	Extended
BP	GO:0043412	macromolecule modification	None	Extended
BP	GO:0043414	macromolecule methylation	None	Extended
BP	GO:0043487	regulation of RNA stability	None	Extended
BP	GO:0043488	regulation of mRNA stability	None	Extended
BP	GO:0043687	post-translational protein modification	RCA	Interproscan
BP	GO:0044237	cellular metabolic process	None	Extended
BP	GO:0044238	primary metabolic process	None	Extended
BP	GO:0044260	cellular macromolecule metabolic process	None	Extended
BP	GO:0044419	biological process involved in interspecies interaction between organisms	None	Extended
BP	GO:0044728	DNA methylation or demethylation	None	Extended
BP	GO:0045087	innate immune response	None	Extended
BP	GO:0045814	negative regulation of gene expression, epigenetic	None	Extended
BP	GO:0045893	positive regulation of DNA-templated transcription	RCA	Interproscan
BP	GO:0045935	positive regulation of nucleobase-containing compound metabolic process	None	Extended
BP	GO:0046483	heterocycle metabolic process	None	Extended
BP	GO:0048518	positive regulation of biological process	None	Extended
BP	GO:0048519	negative regulation of biological process	None	Extended
BP	GO:0048522	positive regulation of cellular process	None	Extended
BP	GO:0048523	negative regulation of cellular process	None	Extended
BP	GO:0050779	RNA destabilization	None	Extended
BP	GO:0050789	regulation of biological process	None	Extended
BP	GO:0050794	regulation of cellular process	None	Extended
BP	GO:0050832	defense response to fungus	IMP	Interproscan
BP	GO:0050896	response to stimulus	None	Extended
BP	GO:0051171	regulation of nitrogen compound metabolic process	None	Extended
BP	GO:0051172	negative regulation of nitrogen compound metabolic process	None	Extended
BP	GO:0051173	positive regulation of nitrogen compound metabolic process	None	Extended
BP	GO:0051246	regulation of protein metabolic process	None	Extended
BP	GO:0051248	negative regulation of protein metabolic process	None	Extended
BP	GO:0051252	regulation of RNA metabolic process	None	Extended
BP	GO:0051254	positive regulation of RNA metabolic process	None	Extended
BP	GO:0051607	defense response to virus	None	Extended
BP	GO:0051707	response to other organism	None	Extended
BP	GO:0060255	regulation of macromolecule metabolic process	None	Extended
BP	GO:0061013	regulation of mRNA catabolic process	None	Extended
BP	GO:0061014	positive regulation of mRNA catabolic process	None	Extended
BP	GO:0061157	mRNA destabilization	None	Extended
BP	GO:0065007	biological regulation	None	Extended
BP	GO:0065008	regulation of biological quality	None	Extended
BP	GO:0070828	heterochromatin organization	None	Extended
BP	GO:0070918	regulatory ncRNA processing	None	Extended
BP	GO:0071704	organic substance metabolic process	None	Extended
BP	GO:0071840	cellular component organization or biogenesis	None	Extended
BP	GO:0080090	regulation of primary metabolic process	None	Extended
BP	GO:0090304	nucleic acid metabolic process	None	Extended
BP	GO:0090625	siRNA-mediated gene silencing by mRNA destabilization	None	Extended
MF	GO:0097747	RNA polymerase activity	None	Extended
BP	GO:0098542	defense response to other organism	None	Extended
CC	GO:0110165	cellular anatomical entity	None	Extended
MF	GO:0140098	catalytic activity, acting on RNA	None	Extended
BP	GO:0140546	defense response to symbiont	None	Extended
MF	GO:0140640	catalytic activity, acting on a nucleic acid	None	Extended
BP	GO:0140718	facultative heterochromatin formation	None	Extended
BP	GO:0140766	siRNA-mediated gene silencing	None	Extended
BP	GO:1901360	organic cyclic compound metabolic process	None	Extended
BP	GO:1901564	organonitrogen compound metabolic process	None	Extended
BP	GO:1902680	positive regulation of RNA biosynthetic process	None	Extended
BP	GO:1903311	regulation of mRNA metabolic process	None	Extended
BP	GO:1903313	positive regulation of mRNA metabolic process	None	Extended
BP	GO:1903506	regulation of nucleic acid-templated transcription	None	Extended
BP	GO:1903508	positive regulation of nucleic acid-templated transcription	None	Extended
BP	GO:2000112	regulation of cellular macromolecule biosynthetic process	None	Extended
BP	GO:2000113	negative regulation of cellular macromolecule biosynthetic process	None	Extended
BP	GO:2001141	regulation of RNA biosynthetic process	None	Extended

Toggle parental

Type	GO Term	Name	Evidence	Source
BP	GO:0000023	maltose metabolic process	IEP	HCCA
BP	GO:0000226	microtubule cytoskeleton organization	IEP	HCCA
BP	GO:0000278	mitotic cell cycle	IEP	HCCA
CC	GO:0000418	RNA polymerase IV complex	IEP	HCCA
CC	GO:0000419	RNA polymerase V complex	IEP	HCCA
CC	GO:0000428	DNA-directed RNA polymerase complex	IEP	HCCA
BP	GO:0000724	double-strand break repair via homologous recombination	IEP	HCCA
BP	GO:0000725	recombinational repair	IEP	HCCA
BP	GO:0000910	cytokinesis	IEP	HCCA
BP	GO:0000911	cytokinesis by cell plate formation	IEP	HCCA
BP	GO:0003006	developmental process involved in reproduction	IEP	HCCA
MF	GO:0003676	nucleic acid binding	IEP	HCCA
MF	GO:0003723	RNA binding	IEP	HCCA
MF	GO:0003725	double-stranded RNA binding	IEP	HCCA
MF	GO:0003899	DNA-directed 5'-3' RNA polymerase activity	IEP	HCCA
MF	GO:0005488	binding	IEP	HCCA
MF	GO:0005515	protein binding	IEP	HCCA
MF	GO:0005516	calmodulin binding	IEP	HCCA
BP	GO:0005984	disaccharide metabolic process	IEP	HCCA
BP	GO:0006260	DNA replication	IEP	HCCA
BP	GO:0006261	DNA-templated DNA replication	IEP	HCCA
BP	GO:0006275	regulation of DNA replication	IEP	HCCA
BP	GO:0006281	DNA repair	IEP	HCCA
BP	GO:0006302	double-strand break repair	IEP	HCCA
BP	GO:0006310	DNA recombination	IEP	HCCA
BP	GO:0006351	DNA-templated transcription	IEP	HCCA
BP	GO:0006354	DNA-templated transcription elongation	IEP	HCCA
BP	GO:0006479	protein methylation	IEP	HCCA
BP	GO:0006482	protein demethylation	IEP	HCCA
BP	GO:0006974	cellular response to DNA damage stimulus	IEP	HCCA
BP	GO:0006996	organelle organization	IEP	HCCA
BP	GO:0007010	cytoskeleton organization	IEP	HCCA
BP	GO:0007017	microtubule-based process	IEP	HCCA
BP	GO:0007049	cell cycle	IEP	HCCA
BP	GO:0007051	spindle organization	IEP	HCCA
BP	GO:0007166	cell surface receptor signaling pathway	IEP	HCCA
BP	GO:0007167	enzyme-linked receptor protein signaling pathway	IEP	HCCA
BP	GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	IEP	HCCA
BP	GO:0007275	multicellular organism development	IEP	HCCA
BP	GO:0008213	protein alkylation	IEP	HCCA
BP	GO:0008214	protein dealkylation	IEP	HCCA
BP	GO:0008283	cell population proliferation	IEP	HCCA
BP	GO:0009059	macromolecule biosynthetic process	IEP	HCCA
BP	GO:0009555	pollen development	IEP	HCCA
BP	GO:0009653	anatomical structure morphogenesis	IEP	HCCA
BP	GO:0009741	response to brassinosteroid	IEP	HCCA
BP	GO:0009909	regulation of flower development	IEP	HCCA
BP	GO:0009965	leaf morphogenesis	IEP	HCCA
BP	GO:0010075	regulation of meristem growth	IEP	HCCA
CC	GO:0015030	Cajal body	IEP	HCCA
BP	GO:0016444	somatic cell DNA recombination	IEP	HCCA
BP	GO:0016570	histone modification	IEP	HCCA
BP	GO:0016571	histone methylation	IEP	HCCA
BP	GO:0016572	obsolete histone phosphorylation	IEP	HCCA
BP	GO:0016577	histone demethylation	IEP	HCCA
CC	GO:0016604	nuclear body	IEP	HCCA
BP	GO:0018022	peptidyl-lysine methylation	IEP	HCCA
BP	GO:0018193	peptidyl-amino acid modification	IEP	HCCA
BP	GO:0018205	peptidyl-lysine modification	IEP	HCCA
BP	GO:0019252	starch biosynthetic process	IEP	HCCA
BP	GO:0022402	cell cycle process	IEP	HCCA
BP	GO:0022414	reproductive process	IEP	HCCA
BP	GO:0022607	cellular component assembly	IEP	HCCA
CC	GO:0030880	RNA polymerase complex	IEP	HCCA
BP	GO:0031048	RNA-mediated heterochromatin formation	IEP	HCCA
BP	GO:0031056	regulation of histone modification	IEP	HCCA
BP	GO:0031057	negative regulation of histone modification	IEP	HCCA
BP	GO:0031399	regulation of protein modification process	IEP	HCCA
BP	GO:0031400	negative regulation of protein modification process	IEP	HCCA
BP	GO:0033169	histone H3-K9 demethylation	IEP	HCCA
BP	GO:0033554	cellular response to stress	IEP	HCCA
BP	GO:0034968	histone lysine methylation	IEP	HCCA
BP	GO:0035065	regulation of histone acetylation	IEP	HCCA
BP	GO:0035067	negative regulation of histone acetylation	IEP	HCCA
MF	GO:0035197	siRNA binding	IEP	HCCA
BP	GO:0043085	positive regulation of catalytic activity	IEP	HCCA
BP	GO:0044093	positive regulation of molecular function	IEP	HCCA
BP	GO:0048229	gametophyte development	IEP	HCCA
BP	GO:0048366	leaf development	IEP	HCCA
BP	GO:0048449	floral organ formation	IEP	HCCA
BP	GO:0048451	petal formation	IEP	HCCA
BP	GO:0048453	sepal formation	IEP	HCCA
BP	GO:0048580	regulation of post-embryonic development	IEP	HCCA
BP	GO:0048646	anatomical structure formation involved in morphogenesis	IEP	HCCA
BP	GO:0048831	regulation of shoot system development	IEP	HCCA
BP	GO:0048856	anatomical structure development	IEP	HCCA
BP	GO:0050790	regulation of catalytic activity	IEP	HCCA
BP	GO:0050793	regulation of developmental process	IEP	HCCA
BP	GO:0051052	regulation of DNA metabolic process	IEP	HCCA
BP	GO:0051225	spindle assembly	IEP	HCCA
BP	GO:0051239	regulation of multicellular organismal process	IEP	HCCA
BP	GO:0051567	histone H3-K9 methylation	IEP	HCCA
BP	GO:0051716	cellular response to stimulus	IEP	HCCA
BP	GO:0051726	regulation of cell cycle	IEP	HCCA
CC	GO:0055029	nuclear DNA-directed RNA polymerase complex	IEP	HCCA
BP	GO:0061647	histone H3-K9 modification	IEP	HCCA
CC	GO:0061695	transferase complex, transferring phosphorus-containing groups	IEP	HCCA
MF	GO:0061980	regulatory RNA binding	IEP	HCCA
BP	GO:0070076	histone lysine demethylation	IEP	HCCA
BP	GO:0070925	organelle assembly	IEP	HCCA
BP	GO:0070988	demethylation	IEP	HCCA
MF	GO:0097159	organic cyclic compound binding	IEP	HCCA
BP	GO:0097659	nucleic acid-templated transcription	IEP	HCCA
CC	GO:0140513	nuclear protein-containing complex	IEP	HCCA
BP	GO:0140694	non-membrane-bounded organelle assembly	IEP	HCCA
MF	GO:1901363	heterocyclic compound binding	IEP	HCCA
BP	GO:1901983	regulation of protein acetylation	IEP	HCCA
BP	GO:1901984	negative regulation of protein acetylation	IEP	HCCA
BP	GO:1905393	plant organ formation	IEP	HCCA
BP	GO:2000026	regulation of multicellular organismal development	IEP	HCCA
BP	GO:2000241	regulation of reproductive process	IEP	HCCA
BP	GO:2000756	regulation of peptidyl-lysine acetylation	IEP	HCCA
BP	GO:2000757	negative regulation of peptidyl-lysine acetylation	IEP	HCCA

InterPro domains	Description	Start	Stop
IPR007855	RNA-dep_RNA_pol_euk-typ	386	964

External Links

No external refs found!

AT4G11130 (SMD1, RDR2)

Expression Profile

Co-expression Networks

Expression Context Conservation (ECC)

Functional Annotation