AT5G39550 (VIM3, ORTH1)

Aliases : VIM3, ORTH1

Description : Zinc finger (C3HC4-type RING finger) family protein

Gene families : OG0003058 (OrthoFinder output from all 47 species) Phylogenetic Tree(s): OG0003058_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: AT5G39550

Target	Alias	Description	ECC score	Gene Family Method
AT1G66050	VIM2, ORTH5	Zinc finger (C3HC4-type RING finger) family protein	0.04	OrthoFinder output from all 47 species
Cpa\|evm.model.tig00001024.15	VIM1, ORTH2	E3 ubiquitin-protein ligase ORTHRUS 2 OS=Arabidopsis thaliana	0.01	OrthoFinder output from all 47 species
Len_g03522	VIM1, ORTH2	regulatory E3 ubiquitin ligase (ORTH/VIM) of...	0.03	OrthoFinder output from all 47 species
Nbi_g03787	VIM1, ORTH2	regulatory E3 ubiquitin ligase (ORTH/VIM) of...	0.02	OrthoFinder output from all 47 species
Zm00001e027679_P001	VIM1, ORTH2,...	E3 ubiquitin-protein ligase ORTHRUS 2 OS=Arabidopsis...	0.02	OrthoFinder output from all 47 species

Type	GO Term	Name	Evidence	Source
MF	GO:0000166	nucleotide binding	None	Extended
BP	GO:0003006	developmental process involved in reproduction	None	Extended
MF	GO:0003674	molecular_function	None	Extended
MF	GO:0003676	nucleic acid binding	None	Extended
MF	GO:0003677	DNA binding	None	Extended
MF	GO:0003824	catalytic activity	None	Extended
MF	GO:0004842	ubiquitin-protein transferase activity	IDA	Interproscan
MF	GO:0005488	binding	None	Extended
CC	GO:0005575	cellular_component	None	Extended
CC	GO:0005634	nucleus	IDA	Interproscan
CC	GO:0005634	nucleus	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	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
MF	GO:0008270	zinc ion binding	ISS	Interproscan
MF	GO:0008327	methyl-CpG binding	IDA	Interproscan
BP	GO:0009987	cellular process	None	Extended
BP	GO:0010228	vegetative to reproductive phase transition of meristem	IMP	Interproscan
BP	GO:0010424	DNA methylation on cytosine within a CG sequence	IMP	Interproscan
MF	GO:0010428	methyl-CpNpG binding	IDA	Interproscan
MF	GO:0010429	methyl-CpNpN binding	IDA	Interproscan
BP	GO:0010468	regulation of gene expression	None	Extended
BP	GO:0010638	positive regulation of organelle organization	None	Extended
BP	GO:0016567	protein ubiquitination	IDA	Interproscan
MF	GO:0016740	transferase activity	None	Extended
BP	GO:0019222	regulation of metabolic process	None	Extended
BP	GO:0019538	protein metabolic process	None	Extended
MF	GO:0019787	ubiquitin-like protein transferase activity	None	Extended
BP	GO:0022414	reproductive process	None	Extended
BP	GO:0031445	regulation of heterochromatin formation	None	Extended
BP	GO:0031453	positive regulation of heterochromatin formation	None	Extended
BP	GO:0032259	methylation	None	Extended
BP	GO:0032446	protein modification by small protein conjugation	None	Extended
BP	GO:0032502	developmental process	None	Extended
BP	GO:0032776	DNA methylation on cytosine	IMP	Interproscan
BP	GO:0033043	regulation of organelle organization	None	Extended
BP	GO:0033044	regulation of chromosome organization	None	Extended
BP	GO:0034641	cellular nitrogen compound metabolic process	None	Extended
MF	GO:0036094	small molecule binding	None	Extended
BP	GO:0036211	protein modification process	None	Extended
MF	GO:0043167	ion binding	None	Extended
MF	GO:0043169	cation binding	None	Extended
BP	GO:0043170	macromolecule metabolic process	None	Extended
CC	GO:0043226	organelle	None	Extended
CC	GO:0043227	membrane-bounded organelle	None	Extended
CC	GO:0043229	intracellular organelle	None	Extended
CC	GO:0043231	intracellular membrane-bounded organelle	None	Extended
BP	GO:0043412	macromolecule modification	None	Extended
BP	GO:0043414	macromolecule methylation	None	Extended
MF	GO:0043565	sequence-specific DNA binding	None	Extended
BP	GO:0044087	regulation of cellular component biogenesis	None	Extended
BP	GO:0044089	positive regulation of cellular component biogenesis	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
BP	GO:0044728	DNA methylation or demethylation	None	Extended
BP	GO:0046483	heterocycle metabolic process	None	Extended
MF	GO:0046872	metal ion binding	None	Extended
MF	GO:0046914	transition metal ion binding	None	Extended
BP	GO:0048518	positive regulation of biological process	None	Extended
BP	GO:0048522	positive 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:0051128	regulation of cellular component organization	None	Extended
BP	GO:0051130	positive regulation of cellular component organization	None	Extended
BP	GO:0060255	regulation of macromolecule metabolic process	None	Extended
BP	GO:0065007	biological regulation	None	Extended
BP	GO:0070647	protein modification by small protein conjugation or removal	None	Extended
BP	GO:0071704	organic substance metabolic process	None	Extended
BP	GO:0090304	nucleic acid metabolic process	None	Extended
BP	GO:0090308	regulation of DNA methylation-dependent heterochromatin formation	None	Extended
BP	GO:0090309	positive regulation of DNA methylation-dependent heterochromatin formation	IMP	Interproscan
MF	GO:0097159	organic cyclic compound binding	None	Extended
CC	GO:0110165	cellular anatomical entity	None	Extended
BP	GO:0120261	regulation of heterochromatin organization	None	Extended
BP	GO:0120263	positive regulation of heterochromatin organization	None	Extended
MF	GO:0140096	catalytic activity, acting on a protein	None	Extended
MF	GO:1901265	nucleoside phosphate binding	None	Extended
BP	GO:1901360	organic cyclic compound metabolic process	None	Extended
MF	GO:1901363	heterocyclic compound binding	None	Extended
BP	GO:1901564	organonitrogen compound metabolic process	None	Extended
BP	GO:1902275	regulation of chromatin organization	None	Extended
BP	GO:1905269	positive regulation of chromatin organization	None	Extended
BP	GO:2001252	positive regulation of chromosome organization	None	Extended

Toggle parental

Type	GO Term	Name	Evidence	Source
MF	GO:0003899	DNA-directed 5'-3' RNA polymerase activity	IEP	HCCA
MF	GO:0004835	tubulin-tyrosine ligase activity	IEP	HCCA
CC	GO:0005622	intracellular anatomical structure	IEP	HCCA
CC	GO:0005694	chromosome	IEP	HCCA
BP	GO:0006312	mitotic recombination	IEP	HCCA
BP	GO:0006351	DNA-templated transcription	IEP	HCCA
BP	GO:0006366	transcription by RNA polymerase II	IEP	HCCA
CC	GO:0008278	cohesin complex	IEP	HCCA
BP	GO:0008608	attachment of spindle microtubules to kinetochore	IEP	HCCA
BP	GO:0009060	aerobic respiration	IEP	HCCA
BP	GO:0009566	fertilization	IEP	HCCA
BP	GO:0009567	double fertilization forming a zygote and endosperm	IEP	HCCA
BP	GO:0010032	meiotic chromosome condensation	IEP	HCCA
MF	GO:0016879	ligase activity, forming carbon-nitrogen bonds	IEP	HCCA
MF	GO:0016881	acid-amino acid ligase activity	IEP	HCCA
BP	GO:0022412	cellular process involved in reproduction in multicellular organism	IEP	HCCA
BP	GO:0030261	chromosome condensation	IEP	HCCA
CC	GO:0031982	vesicle	IEP	HCCA
BP	GO:0032774	RNA biosynthetic process	IEP	HCCA
BP	GO:0032879	regulation of localization	IEP	HCCA
BP	GO:0032880	regulation of protein localization	IEP	HCCA
BP	GO:0042991	obsolete transcription factor import into nucleus	IEP	HCCA
CC	GO:0044815	DNA packaging complex	IEP	HCCA
BP	GO:0048240	sperm capacitation	IEP	HCCA
BP	GO:0048444	floral organ morphogenesis	IEP	HCCA
BP	GO:0048445	carpel morphogenesis	IEP	HCCA
BP	GO:0051177	meiotic sister chromatid cohesion	IEP	HCCA
BP	GO:0051316	attachment of spindle microtubules to kinetochore involved in meiotic chromosome segregation	IEP	HCCA
BP	GO:0051455	monopolar spindle attachment to meiosis I kinetochore	IEP	HCCA
BP	GO:0051754	meiotic sister chromatid cohesion, centromeric	IEP	HCCA
BP	GO:0060341	regulation of cellular localization	IEP	HCCA
BP	GO:0070601	centromeric sister chromatid cohesion	IEP	HCCA
BP	GO:0080154	regulation of fertilization	IEP	HCCA
BP	GO:0080155	regulation of double fertilization forming a zygote and endosperm	IEP	HCCA
BP	GO:0097659	nucleic acid-templated transcription	IEP	HCCA
BP	GO:2000008	regulation of protein localization to cell surface	IEP	HCCA
BP	GO:2000241	regulation of reproductive process	IEP	HCCA

InterPro domains	Description	Start	Stop
IPR003105	SRA_YDG	260	410
IPR027370	Znf-RING_euk	495	537

External Links

No external refs found!

AT5G39550 (VIM3, ORTH1)

Expression Profile

Co-expression Networks

Expression Context Conservation (ECC)

Functional Annotation