AT3G48670 (RDM12, IDN2)

Aliases : RDM12, IDN2

Description : XH/XS domain-containing protein

Gene families : OG0000867 (Archaeplastida) Phylogenetic Tree(s): OG0000867_tree ,
OG_05_0000555 (LandPlants) Phylogenetic Tree(s): OG_05_0000555_tree ,
OG_06_0000747 (SeedPlants) Phylogenetic Tree(s): OG_06_0000747_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: AT3G48670
Cluster	HCCA: Cluster_31

Target	Alias	Description	ECC score	Gene Family Method
AMTR_s00012p00229720	evm_27.TU.AmTr_v1...	Factor of DNA methylation 1 OS=Arabidopsis thaliana	0.02	Archaeplastida
AMTR_s00012p00230440	evm_27.TU.AmTr_v1...	Chromatin organisation.DNA methylation.canonical...	0.05	Archaeplastida
GSVIVT01010889001	No alias	Chromatin organisation.DNA methylation.canonical...	0.07	Archaeplastida
GSVIVT01016528001	No alias	Chromatin organisation.DNA methylation.canonical...	0.03	Archaeplastida
LOC_Os01g44230.1	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.04	Archaeplastida
MA_16249g0010	No alias	Factor of DNA methylation 1 OS=Arabidopsis thaliana...	0.04	Archaeplastida
MA_166638g0010	No alias	no hits & (original description: none)	0.04	Archaeplastida
MA_9285293g0010	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.03	Archaeplastida
Mp6g07340.1	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.02	Archaeplastida
Pp3c21_20310V3.1	No alias	XH/XS domain-containing protein	0.02	Archaeplastida
Pp3c21_20330V3.1	No alias	XH/XS domain-containing protein	0.04	Archaeplastida
Solyc02g077170.3.1	No alias	Factor of DNA methylation 1 OS=Arabidopsis thaliana...	0.03	Archaeplastida
Solyc03g117040.3.1	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.04	Archaeplastida
Solyc05g054420.4.1	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.03	Archaeplastida
Solyc06g051810.4.1	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.04	Archaeplastida
Solyc06g076210.3.1	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.06	Archaeplastida
Zm00001e016919_P001	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.04	Archaeplastida
Zm00001e020386_P003	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.05	Archaeplastida
Zm00001e025803_P001	No alias	IDN/IDP regulatory protein of DNA methylation pathway	0.04	Archaeplastida

Type	GO Term	Name	Evidence	Source
CC	GO:0005575	cellular_component	None	Extended
CC	GO:0005737	cytoplasm	ISM	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	IMP	Interproscan
BP	GO:0006306	DNA methylation	IGI	Interproscan
BP	GO:0006325	chromatin organization	None	Extended
BP	GO:0006342	chromatin silencing	IGI	Interproscan
BP	GO:0006355	regulation of transcription, DNA-templated	None	Extended
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:0009889	regulation of biosynthetic process	None	Extended
BP	GO:0009890	negative regulation of biosynthetic process	None	Extended
BP	GO:0009892	negative regulation of metabolic process	None	Extended
BP	GO:0009987	cellular process	None	Extended
BP	GO:0010035	response to inorganic substance	None	Extended
BP	GO:0010038	response to metal ion	None	Extended
BP	GO:0010468	regulation of gene expression	None	Extended
BP	GO:0010556	regulation of macromolecule biosynthetic process	None	Extended
BP	GO:0010558	negative regulation of macromolecule biosynthetic process	None	Extended
BP	GO:0010605	negative regulation of macromolecule metabolic process	None	Extended
BP	GO:0010629	negative regulation of gene expression	None	Extended
BP	GO:0016043	cellular component organization	None	Extended
BP	GO:0016458	gene silencing	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:0031323	regulation of cellular metabolic process	None	Extended
BP	GO:0031324	negative 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:0032259	methylation	None	Extended
BP	GO:0034641	cellular nitrogen compound metabolic process	None	Extended
BP	GO:0040029	regulation of gene expression, epigenetic	None	Extended
BP	GO:0042221	response to chemical	None	Extended
BP	GO:0043170	macromolecule metabolic process	None	Extended
BP	GO:0043412	macromolecule modification	None	Extended
BP	GO:0043414	macromolecule methylation	None	Extended
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
CC	GO:0044424	intracellular part	None	Extended
CC	GO:0044464	cell part	None	Extended
BP	GO:0044728	DNA methylation or demethylation	None	Extended
BP	GO:0045814	negative regulation of gene expression, epigenetic	None	Extended
BP	GO:0045892	negative regulation of transcription, DNA-templated	None	Extended
BP	GO:0045934	negative regulation of nucleobase-containing compound metabolic process	None	Extended
BP	GO:0046483	heterocycle metabolic process	None	Extended
BP	GO:0046686	response to cadmium ion	IEP	Interproscan
BP	GO:0048519	negative regulation of biological process	None	Extended
BP	GO:0048523	negative regulation of cellular process	None	Extended
BP	GO:0050789	regulation of biological process	None	Extended
BP	GO:0050794	regulation of cellular process	None	Extended
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:0051252	regulation of RNA metabolic process	None	Extended
BP	GO:0051253	negative 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: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:1901360	organic cyclic compound metabolic process	None	Extended
BP	GO:1902679	negative regulation of RNA biosynthetic process	None	Extended
BP	GO:1903506	regulation of nucleic acid-templated transcription	None	Extended
BP	GO:1903507	negative 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:0000226	microtubule cytoskeleton organization	IEP	Neighborhood
BP	GO:0000278	mitotic cell cycle	IEP	Neighborhood
BP	GO:0000724	double-strand break repair via homologous recombination	IEP	Neighborhood
BP	GO:0000725	recombinational repair	IEP	Neighborhood
BP	GO:0000911	cytokinesis by cell plate formation	IEP	Neighborhood
MF	GO:0001076	obsolete transcription factor activity, RNA polymerase II transcription factor binding	IEP	Neighborhood
BP	GO:0002252	immune effector process	IEP	Neighborhood
BP	GO:0002376	immune system process	IEP	Neighborhood
BP	GO:0003006	developmental process involved in reproduction	IEP	Neighborhood
MF	GO:0003676	nucleic acid binding	IEP	Neighborhood
MF	GO:0003677	DNA binding	IEP	Neighborhood
MF	GO:0003724	RNA helicase activity	IEP	Neighborhood
MF	GO:0003725	double-stranded RNA binding	IEP	Neighborhood
MF	GO:0003906	DNA-(apurinic or apyrimidinic site) endonuclease activity	IEP	Neighborhood
MF	GO:0003950	NAD+ ADP-ribosyltransferase activity	IEP	Neighborhood
MF	GO:0004367	glycerol-3-phosphate dehydrogenase [NAD+] activity	IEP	Neighborhood
MF	GO:0004386	helicase activity	IEP	Neighborhood
MF	GO:0004819	glutamine-tRNA ligase activity	IEP	Neighborhood
CC	GO:0005634	nucleus	IEP	Neighborhood
BP	GO:0006072	glycerol-3-phosphate metabolic process	IEP	Neighborhood
BP	GO:0006260	DNA replication	IEP	Neighborhood
BP	GO:0006261	DNA-dependent DNA replication	IEP	Neighborhood
BP	GO:0006275	regulation of DNA replication	IEP	Neighborhood
BP	GO:0006281	DNA repair	IEP	Neighborhood
BP	GO:0006284	base-excision repair	IEP	Neighborhood
BP	GO:0006302	double-strand break repair	IEP	Neighborhood
BP	GO:0006310	DNA recombination	IEP	Neighborhood
BP	GO:0006346	methylation-dependent chromatin silencing	IEP	Neighborhood
BP	GO:0006396	RNA processing	IEP	Neighborhood
BP	GO:0006424	glutamyl-tRNA aminoacylation	IEP	Neighborhood
BP	GO:0006464	cellular protein modification process	IEP	Neighborhood
BP	GO:0006471	protein ADP-ribosylation	IEP	Neighborhood
BP	GO:0006479	protein methylation	IEP	Neighborhood
BP	GO:0006950	response to stress	IEP	Neighborhood
BP	GO:0006952	defense response	IEP	Neighborhood
BP	GO:0006955	immune response	IEP	Neighborhood
BP	GO:0006974	cellular response to DNA damage stimulus	IEP	Neighborhood
BP	GO:0006986	response to unfolded protein	IEP	Neighborhood
BP	GO:0007017	microtubule-based process	IEP	Neighborhood
BP	GO:0007049	cell cycle	IEP	Neighborhood
BP	GO:0007154	cell communication	IEP	Neighborhood
BP	GO:0007267	cell-cell signaling	IEP	Neighborhood
BP	GO:0007275	multicellular organism development	IEP	Neighborhood
BP	GO:0007389	pattern specification process	IEP	Neighborhood
BP	GO:0008213	protein alkylation	IEP	Neighborhood
MF	GO:0008276	protein methyltransferase activity	IEP	Neighborhood
BP	GO:0008300	isoprenoid catabolic process	IEP	Neighborhood
BP	GO:0009059	macromolecule biosynthetic process	IEP	Neighborhood
CC	GO:0009331	glycerol-3-phosphate dehydrogenase complex	IEP	Neighborhood
BP	GO:0009555	pollen development	IEP	Neighborhood
BP	GO:0009605	response to external stimulus	IEP	Neighborhood
BP	GO:0009607	response to biotic stimulus	IEP	Neighborhood
BP	GO:0009615	response to virus	IEP	Neighborhood
BP	GO:0009616	virus induced gene silencing	IEP	Neighborhood
BP	GO:0009685	gibberellin metabolic process	IEP	Neighborhood
BP	GO:0009790	embryo development	IEP	Neighborhood
BP	GO:0009791	post-embryonic development	IEP	Neighborhood
BP	GO:0009793	embryo development ending in seed dormancy	IEP	Neighborhood
BP	GO:0009799	specification of symmetry	IEP	Neighborhood
BP	GO:0009838	abscission	IEP	Neighborhood
BP	GO:0009855	determination of bilateral symmetry	IEP	Neighborhood
BP	GO:0009891	positive regulation of biosynthetic process	IEP	Neighborhood
BP	GO:0009893	positive regulation of metabolic process	IEP	Neighborhood
BP	GO:0009900	dehiscence	IEP	Neighborhood
BP	GO:0009909	regulation of flower development	IEP	Neighborhood
BP	GO:0009933	meristem structural organization	IEP	Neighborhood
BP	GO:0010014	meristem initiation	IEP	Neighborhood
BP	GO:0010047	fruit dehiscence	IEP	Neighborhood
BP	GO:0010050	vegetative phase change	IEP	Neighborhood
BP	GO:0010262	somatic embryogenesis	IEP	Neighborhood
BP	GO:0010267	production of ta-siRNAs involved in RNA interference	IEP	Neighborhood
BP	GO:0010557	positive regulation of macromolecule biosynthetic process	IEP	Neighborhood
BP	GO:0010604	positive regulation of macromolecule metabolic process	IEP	Neighborhood
BP	GO:0010608	posttranscriptional regulation of gene expression	IEP	Neighborhood
BP	GO:0010628	positive regulation of gene expression	IEP	Neighborhood
BP	GO:0010639	negative regulation of organelle organization	IEP	Neighborhood
BP	GO:0016070	RNA metabolic process	IEP	Neighborhood
BP	GO:0016101	diterpenoid metabolic process	IEP	Neighborhood
BP	GO:0016103	diterpenoid catabolic process	IEP	Neighborhood
BP	GO:0016115	terpenoid catabolic process	IEP	Neighborhood
BP	GO:0016246	RNA interference	IEP	Neighborhood
BP	GO:0016441	posttranscriptional gene silencing	IEP	Neighborhood
BP	GO:0016444	somatic cell DNA recombination	IEP	Neighborhood
MF	GO:0016462	pyrophosphatase activity	IEP	Neighborhood
BP	GO:0016569	covalent chromatin modification	IEP	Neighborhood
BP	GO:0016570	histone modification	IEP	Neighborhood
BP	GO:0016571	histone methylation	IEP	Neighborhood
MF	GO:0016799	hydrolase activity, hydrolyzing N-glycosyl compounds	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:0017111	nucleoside-triphosphatase activity	IEP	Neighborhood
BP	GO:0018022	peptidyl-lysine methylation	IEP	Neighborhood
BP	GO:0018193	peptidyl-amino acid modification	IEP	Neighborhood
BP	GO:0018205	peptidyl-lysine modification	IEP	Neighborhood
BP	GO:0018345	protein palmitoylation	IEP	Neighborhood
MF	GO:0019104	DNA N-glycosylase activity	IEP	Neighborhood
BP	GO:0022402	cell cycle process	IEP	Neighborhood
BP	GO:0022414	reproductive process	IEP	Neighborhood
BP	GO:0023052	signaling	IEP	Neighborhood
BP	GO:0030422	production of siRNA involved in RNA interference	IEP	Neighborhood
BP	GO:0031047	gene silencing by RNA	IEP	Neighborhood
BP	GO:0031048	chromatin silencing by small RNA	IEP	Neighborhood
BP	GO:0031050	dsRNA fragmentation	IEP	Neighborhood
BP	GO:0031325	positive regulation of cellular metabolic process	IEP	Neighborhood
BP	GO:0031328	positive regulation of cellular biosynthetic process	IEP	Neighborhood
BP	GO:0031930	mitochondria-nucleus signaling pathway	IEP	Neighborhood
BP	GO:0031935	regulation of chromatin silencing	IEP	Neighborhood
BP	GO:0031936	negative regulation of chromatin silencing	IEP	Neighborhood
BP	GO:0032501	multicellular organismal process	IEP	Neighborhood
BP	GO:0032502	developmental process	IEP	Neighborhood
BP	GO:0032506	cytokinetic process	IEP	Neighborhood
BP	GO:0033043	regulation of organelle organization	IEP	Neighborhood
BP	GO:0033044	regulation of chromosome organization	IEP	Neighborhood
BP	GO:0033554	cellular response to stress	IEP	Neighborhood
BP	GO:0034605	cellular response to heat	IEP	Neighborhood
BP	GO:0034620	cellular response to unfolded protein	IEP	Neighborhood
BP	GO:0034645	cellular macromolecule biosynthetic process	IEP	Neighborhood
BP	GO:0034968	histone lysine methylation	IEP	Neighborhood
BP	GO:0035194	posttranscriptional gene silencing by RNA	IEP	Neighborhood
BP	GO:0035196	production of miRNAs involved in gene silencing by miRNA	IEP	Neighborhood
BP	GO:0035510	DNA dealkylation	IEP	Neighborhood
BP	GO:0035821	modification of morphology or physiology of other organism	IEP	Neighborhood
BP	GO:0035967	cellular response to topologically incorrect protein	IEP	Neighborhood
BP	GO:0036211	protein modification process	IEP	Neighborhood
MF	GO:0042054	histone methyltransferase activity	IEP	Neighborhood
BP	GO:0042447	hormone catabolic process	IEP	Neighborhood
BP	GO:0043207	response to external biotic stimulus	IEP	Neighborhood
MF	GO:0043621	protein self-association	IEP	Neighborhood
BP	GO:0043687	post-translational protein modification	IEP	Neighborhood
BP	GO:0044003	modification by symbiont of host morphology or physiology	IEP	Neighborhood
BP	GO:0044267	cellular protein metabolic process	IEP	Neighborhood
BP	GO:0044419	interspecies interaction between organisms	IEP	Neighborhood
BP	GO:0045087	innate immune response	IEP	Neighborhood
BP	GO:0045487	gibberellin catabolic process	IEP	Neighborhood
BP	GO:0045815	positive regulation of gene expression, epigenetic	IEP	Neighborhood
BP	GO:0045893	positive regulation of transcription, DNA-templated	IEP	Neighborhood
BP	GO:0045935	positive regulation of nucleobase-containing compound metabolic process	IEP	Neighborhood
BP	GO:0046167	glycerol-3-phosphate biosynthetic process	IEP	Neighborhood
BP	GO:0046685	response to arsenic-containing substance	IEP	Neighborhood
BP	GO:0048229	gametophyte development	IEP	Neighborhood
BP	GO:0048449	floral organ formation	IEP	Neighborhood
BP	GO:0048451	petal formation	IEP	Neighborhood
BP	GO:0048453	sepal formation	IEP	Neighborhood
BP	GO:0048481	plant ovule development	IEP	Neighborhood
BP	GO:0048518	positive regulation of biological process	IEP	Neighborhood
BP	GO:0048522	positive regulation of cellular process	IEP	Neighborhood
BP	GO:0048532	anatomical structure arrangement	IEP	Neighborhood
BP	GO:0048577	negative regulation of short-day photoperiodism, flowering	IEP	Neighborhood
BP	GO:0048580	regulation of post-embryonic development	IEP	Neighborhood
BP	GO:0048587	regulation of short-day photoperiodism, flowering	IEP	Neighborhood
BP	GO:0048609	multicellular organismal reproductive process	IEP	Neighborhood
BP	GO:0048646	anatomical structure formation involved in morphogenesis	IEP	Neighborhood
BP	GO:0048831	regulation of shoot system development	IEP	Neighborhood
BP	GO:0050793	regulation of developmental process	IEP	Neighborhood
BP	GO:0051052	regulation of DNA metabolic process	IEP	Neighborhood
BP	GO:0051129	negative regulation of cellular component organization	IEP	Neighborhood
BP	GO:0051173	positive regulation of nitrogen compound metabolic process	IEP	Neighborhood
BP	GO:0051239	regulation of multicellular organismal process	IEP	Neighborhood
BP	GO:0051254	positive regulation of RNA metabolic process	IEP	Neighborhood
BP	GO:0051276	chromosome organization	IEP	Neighborhood
BP	GO:0051567	histone H3-K9 methylation	IEP	Neighborhood
BP	GO:0051607	defense response to virus	IEP	Neighborhood
BP	GO:0051701	interaction with host	IEP	Neighborhood
BP	GO:0051704	multi-organism process	IEP	Neighborhood
BP	GO:0051707	response to other organism	IEP	Neighborhood
BP	GO:0051716	cellular response to stimulus	IEP	Neighborhood
BP	GO:0051817	modification of morphology or physiology of other organism involved in symbiotic interaction	IEP	Neighborhood
BP	GO:0052018	modulation by symbiont of RNA levels in host	IEP	Neighborhood
BP	GO:0052249	modulation of RNA levels in other organism involved in symbiotic interaction	IEP	Neighborhood
BP	GO:0052646	alditol phosphate metabolic process	IEP	Neighborhood
BP	GO:0060860	regulation of floral organ abscission	IEP	Neighborhood
BP	GO:0060862	negative regulation of floral organ abscission	IEP	Neighborhood
BP	GO:0060867	fruit abscission	IEP	Neighborhood
BP	GO:0060968	regulation of gene silencing	IEP	Neighborhood
BP	GO:0060969	negative regulation of gene silencing	IEP	Neighborhood
BP	GO:0061647	histone H3-K9 modification	IEP	Neighborhood
BP	GO:0070417	cellular response to cold	IEP	Neighborhood
BP	GO:0070887	cellular response to chemical stimulus	IEP	Neighborhood
BP	GO:0070918	production of small RNA involved in gene silencing by RNA	IEP	Neighborhood
BP	GO:0070988	demethylation	IEP	Neighborhood
BP	GO:0071310	cellular response to organic substance	IEP	Neighborhood
BP	GO:0071365	cellular response to auxin stimulus	IEP	Neighborhood
BP	GO:0080050	regulation of seed development	IEP	Neighborhood
BP	GO:0080111	DNA demethylation	IEP	Neighborhood
BP	GO:0080188	RNA-directed DNA methylation	IEP	Neighborhood
BP	GO:0098542	defense response to other organism	IEP	Neighborhood
BP	GO:0098586	cellular response to virus	IEP	Neighborhood
BP	GO:0099402	plant organ development	IEP	Neighborhood
MF	GO:0140098	catalytic activity, acting on RNA	IEP	Neighborhood
BP	GO:1902275	regulation of chromatin organization	IEP	Neighborhood
BP	GO:1902410	mitotic cytokinetic process	IEP	Neighborhood
BP	GO:1902680	positive regulation of RNA biosynthetic process	IEP	Neighborhood
BP	GO:1903046	meiotic cell cycle process	IEP	Neighborhood
BP	GO:1903047	mitotic cell cycle process	IEP	Neighborhood
BP	GO:1903508	positive regulation of nucleic acid-templated transcription	IEP	Neighborhood
BP	GO:1905268	negative regulation of chromatin organization	IEP	Neighborhood
BP	GO:1905393	plant organ formation	IEP	Neighborhood
BP	GO:2000026	regulation of multicellular organismal development	IEP	Neighborhood
BP	GO:2000028	regulation of photoperiodism, flowering	IEP	Neighborhood
BP	GO:2000034	regulation of seed maturation	IEP	Neighborhood
BP	GO:2000241	regulation of reproductive process	IEP	Neighborhood
BP	GO:2000692	negative regulation of seed maturation	IEP	Neighborhood
BP	GO:2001251	negative regulation of chromosome organization	IEP	Neighborhood

InterPro domains	Description	Start	Stop
IPR005381	Znf-XS_domain	48	91
IPR005379	Uncharacterised_XH	511	643
IPR005380	XS_domain	124	235

External Links

No external refs found!

AT3G48670 (RDM12, IDN2)

Expression Profile

Co-expression Networks

Expression Context Conservation (ECC)

Functional Annotation