PPGR - Gene Detail

Basic Information

Gene Structure

Domain

Regulation&
Interaction

Annotation

Orthologus Group

Pathway

Basic Information

Gene ID	AmTr_scaff00147.40.v1.0.g View in Genome Browser
Position	AmTr_scaff00147:899041-899274 (-) 233bp
Gene Type	gene
Gene Description (Protein Product)	generation of catalytic spliceosome for second transesterification step
Organism	Amborella trichopoda
Also AS	AT1G77180AMTR_s00147p00080840

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)

AmTr_scaff00176.13.v1.0.g splicing factor 3A subunit

AmTr_scaff00176.14.v1.0.g splicing factor 3A subunit

AmTr_scaff00171.49.v1.0.g Coiled-coil domain-containing protein

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Annotation

Orthologous Group

Orthologous ID	Species Number	All hits in PereRegDB	Hits of this species	Orthologous Detail

Pathway

GO Term	Description	GO Category
GO:0000003	reproduction	BP
GO:0000122	negative regulation of transcription by RNA polymerase II	BP
GO:0000350	generation of catalytic spliceosome for second transesterification step	BP
GO:0000375	RNA splicing, via transesterification reactions	BP
GO:0000377	RNA splicing, via transesterification reactions with bulged adenosine as nucleophile	BP
GO:0000393	spliceosomal conformational changes to generate catalytic conformation	BP
GO:0000398	mRNA splicing, via spliceosome	BP
GO:0000785	chromatin	CC
GO:0000974	Prp19 complex	CC
GO:0001101	response to acid chemical	BP
GO:0001700	embryonic development via the syncytial blastoderm	BP
GO:0002119	nematode larval development	BP
GO:0002164	larval development	BP
GO:0003006	developmental process involved in reproduction	BP
GO:0003674	molecular_function	MF
GO:0003676	nucleic acid binding	MF
GO:0003712	transcription coregulator activity	MF
GO:0003713	transcription coactivator activity	MF
GO:0003714	transcription corepressor activity	MF
GO:0003723	RNA binding	MF
GO:0005102	signaling receptor binding	MF
GO:0005112	Notch binding	MF
GO:0005488	binding	MF
GO:0005515	protein binding	MF
GO:0005575	cellular_component	CC
GO:0005622	intracellular anatomical structure	CC
GO:0005623	obsolete cell	CC
GO:0005634	nucleus	CC
GO:0005654	nucleoplasm	CC
GO:0005681	spliceosomal complex	CC
GO:0005684	U2-type spliceosomal complex	CC
GO:0005694	chromosome	CC
GO:0005730	nucleolus	CC
GO:0005737	cytoplasm	CC
GO:0006139	nucleobase-containing compound metabolic process	BP
GO:0006351	DNA-templated transcription	BP
GO:0006352	DNA-templated transcription initiation	BP
GO:0006355	regulation of DNA-templated transcription	BP
GO:0006357	regulation of transcription by RNA polymerase II	BP
GO:0006366	transcription by RNA polymerase II	BP
GO:0006367	transcription initiation at RNA polymerase II promoter	BP
GO:0006396	RNA processing	BP
GO:0006397	mRNA processing	BP
GO:0006725	cellular aromatic compound metabolic process	BP
GO:0006807	nitrogen compound metabolic process	BP
GO:0006915	apoptotic process	BP
GO:0006950	response to stress	BP
GO:0006970	response to osmotic stress	BP
GO:0006974	cellular response to DNA damage stimulus	BP
GO:0007154	cell communication	BP
GO:0007165	signal transduction	BP
GO:0007166	cell surface receptor signaling pathway	BP
GO:0007219	Notch signaling pathway	BP
GO:0007221	positive regulation of transcription of Notch receptor target	BP
GO:0007275	multicellular organism development	BP
GO:0007276	gamete generation	BP
GO:0007281	germ cell development	BP
GO:0007399	nervous system development	BP
GO:0007444	imaginal disc development	BP
GO:0007517	muscle organ development	BP
GO:0007519	skeletal muscle tissue development	BP
GO:0007610	behavior	BP
GO:0008134	transcription factor binding	MF
GO:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0008219	cell death	BP
GO:0008380	RNA splicing	BP
GO:0008593	regulation of Notch signaling pathway	BP
GO:0008630	intrinsic apoptotic signaling pathway in response to DNA damage	BP
GO:0009058	biosynthetic process	BP
GO:0009059	macromolecule biosynthetic process	BP
GO:0009628	response to abiotic stimulus	BP
GO:0009651	response to salt stress	BP
GO:0009719	response to endogenous stimulus	BP
GO:0009725	response to hormone	BP
GO:0009737	response to abscisic acid	BP
GO:0009743	response to carbohydrate	BP
GO:0009790	embryo development	BP
GO:0009791	post-embryonic development	BP
GO:0009792	embryo development ending in birth or egg hatching	BP
GO:0009888	tissue development	BP
GO:0009889	regulation of biosynthetic process	BP
GO:0009890	negative regulation of biosynthetic process	BP
GO:0009891	positive regulation of biosynthetic process	BP
GO:0009892	negative regulation of metabolic process	BP
GO:0009893	positive regulation of metabolic process	BP
GO:0009966	regulation of signal transduction	BP
GO:0009967	positive regulation of signal transduction	BP
GO:0009987	cellular process	BP
GO:0010033	response to organic substance	BP
GO:0010228	vegetative to reproductive phase transition of meristem	BP
GO:0010467	gene expression	BP
GO:0010468	regulation of gene expression	BP
GO:0010555	response to mannitol	BP
GO:0010556	regulation of macromolecule biosynthetic process	BP
GO:0010557	positive regulation of macromolecule biosynthetic process	BP
GO:0010558	negative regulation of macromolecule biosynthetic process	BP
GO:0010604	positive regulation of macromolecule metabolic process	BP
GO:0010605	negative regulation of macromolecule metabolic process	BP
GO:0010628	positive regulation of gene expression	BP
GO:0010629	negative regulation of gene expression	BP
GO:0010638	positive regulation of organelle organization	BP
GO:0010646	regulation of cell communication	BP
GO:0010647	positive regulation of cell communication	BP
GO:0010720	positive regulation of cell development	BP
GO:0012501	programmed cell death	BP
GO:0014706	striated muscle tissue development	BP
GO:0016043	cellular component organization	BP
GO:0016070	RNA metabolic process	BP
GO:0016071	mRNA metabolic process	BP
GO:0016363	nuclear matrix	CC
GO:0016604	nuclear body	CC
GO:0016607	nuclear speck	CC
GO:0017015	regulation of transforming growth factor beta receptor signaling pathway	BP
GO:0018130	heterocycle biosynthetic process	BP
GO:0018991	oviposition	BP
GO:0019098	reproductive behavior	BP
GO:0019219	regulation of nucleobase-containing compound metabolic process	BP
GO:0019222	regulation of metabolic process	BP
GO:0019438	aromatic compound biosynthetic process	BP
GO:0019899	enzyme binding	MF
GO:0019953	sexual reproduction	BP
GO:0022008	neurogenesis	BP
GO:0022412	cellular process involved in reproduction in multicellular organism	BP
GO:0022414	reproductive process	BP
GO:0022607	cellular component assembly	BP
GO:0022613	ribonucleoprotein complex biogenesis	BP
GO:0022618	ribonucleoprotein complex assembly	BP
GO:0023051	regulation of signaling	BP
GO:0023052	signaling	BP
GO:0023056	positive regulation of signaling	BP
GO:0030154	cell differentiation	BP
GO:0030511	positive regulation of transforming growth factor beta receptor signaling pathway	BP
GO:0030522	intracellular receptor signaling pathway	BP
GO:0031056	regulation of histone modification	BP
GO:0031058	positive regulation of histone modification	BP
GO:0031060	regulation of histone methylation	BP
GO:0031062	positive regulation of histone methylation	BP
GO:0031323	regulation of cellular metabolic process	BP
GO:0031324	negative regulation of cellular metabolic process	BP
GO:0031325	positive regulation of cellular metabolic process	BP
GO:0031326	regulation of cellular biosynthetic process	BP
GO:0031327	negative regulation of cellular biosynthetic process	BP
GO:0031328	positive regulation of cellular biosynthetic process	BP
GO:0031399	regulation of protein modification process	BP
GO:0031401	positive regulation of protein modification process	BP
GO:0031974	membrane-enclosed lumen	CC
GO:0031981	nuclear lumen	CC
GO:0032101	regulation of response to external stimulus	BP
GO:0032103	positive regulation of response to external stimulus	BP
GO:0032104	regulation of response to extracellular stimulus	BP
GO:0032106	positive regulation of response to extracellular stimulus	BP
GO:0032107	regulation of response to nutrient levels	BP
GO:0032109	positive regulation of response to nutrient levels	BP
GO:0032268	regulation of protein metabolic process	BP
GO:0032270	positive regulation of protein metabolic process	BP
GO:0032501	multicellular organismal process	BP
GO:0032502	developmental process	BP
GO:0032504	multicellular organism reproduction	BP
GO:0032526	response to retinoic acid	BP
GO:0032774	RNA biosynthetic process	BP
GO:0032991	protein-containing complex	CC
GO:0033043	regulation of organelle organization	BP
GO:0033044	regulation of chromosome organization	BP
GO:0033120	positive regulation of RNA splicing	BP
GO:0033554	cellular response to stress	BP
GO:0033993	response to lipid	BP
GO:0034399	nuclear periphery	CC
GO:0034622	protein-containing complex assembly	BP
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0034645	cellular macromolecule biosynthetic process	BP
GO:0034654	nucleobase-containing compound biosynthetic process	BP
GO:0035214	eye-antennal disc development	BP
GO:0035257	nuclear receptor binding	MF
GO:0035258	nuclear receptor binding	MF
GO:0035295	tube development	BP
GO:0035556	intracellular signal transduction	BP
GO:0035821	modulation of process of another organism	BP
GO:0035914	skeletal muscle cell differentiation	BP
GO:0036002	pre-mRNA binding	MF
GO:0040011	locomotion	BP
GO:0040025	vulval development	BP
GO:0042221	response to chemical	BP
GO:0042303	molting cycle	BP
GO:0042752	regulation of circadian rhythm	BP
GO:0042771	intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator	BP
GO:0042809	nuclear vitamin D receptor binding	MF
GO:0042974	nuclear retinoic acid receptor binding	MF
GO:0043170	macromolecule metabolic process	BP
GO:0043226	organelle	CC
GO:0043227	membrane-bounded organelle	CC
GO:0043228	non-membrane-bounded organelle	CC
GO:0043229	intracellular organelle	CC
GO:0043231	intracellular membrane-bounded organelle	CC
GO:0043232	intracellular non-membrane-bounded organelle	CC
GO:0043233	organelle lumen	CC
GO:0043484	regulation of RNA splicing	BP
GO:0043900	obsolete regulation of multi-organism process	BP
GO:0043902	obsolete positive regulation of multi-organism process	BP
GO:0043903	regulation of biological process involved in symbiotic interaction	BP
GO:0043921	modulation by host of viral transcription	BP
GO:0043923	positive regulation by host of viral transcription	BP
GO:0043933	protein-containing complex organization	BP
GO:0044085	cellular component biogenesis	BP
GO:0044237	cellular metabolic process	BP
GO:0044238	primary metabolic process	BP
GO:0044249	cellular biosynthetic process	BP
GO:0044260	cellular macromolecule metabolic process	BP
GO:0044271	cellular nitrogen compound biosynthetic process	BP
GO:0044403	biological process involved in symbiotic interaction	BP
GO:0044419	biological process involved in interspecies interaction between organisms	BP
GO:0044422	obsolete organelle part	CC
GO:0044424	obsolete intracellular part	CC
GO:0044427	obsolete chromosomal part	CC
GO:0044428	obsolete nuclear part	CC
GO:0044446	obsolete intracellular organelle part	CC
GO:0044451	obsolete nucleoplasm part	CC
GO:0044464	obsolete cell part	CC
GO:0044703	multi-organism reproductive process	BP
GO:0045595	regulation of cell differentiation	BP
GO:0045597	positive regulation of cell differentiation	BP
GO:0045747	positive regulation of Notch signaling pathway	BP
GO:0045892	negative regulation of DNA-templated transcription	BP
GO:0045893	positive regulation of DNA-templated transcription	BP
GO:0045934	negative regulation of nucleobase-containing compound metabolic process	BP
GO:0045935	positive regulation of nucleobase-containing compound metabolic process	BP
GO:0045944	positive regulation of transcription by RNA polymerase II	BP
GO:0046332	SMAD binding	MF
GO:0046483	heterocycle metabolic process	BP
GO:0046782	regulation of viral transcription	BP
GO:0047484	regulation of response to osmotic stress	BP
GO:0048024	regulation of mRNA splicing, via spliceosome	BP
GO:0048026	positive regulation of mRNA splicing, via spliceosome	BP
GO:0048384	retinoic acid receptor signaling pathway	BP
GO:0048385	regulation of retinoic acid receptor signaling pathway	BP
GO:0048468	cell development	BP
GO:0048513	animal organ development	BP
GO:0048518	positive regulation of biological process	BP
GO:0048519	negative regulation of biological process	BP
GO:0048522	positive regulation of cellular process	BP
GO:0048523	negative regulation of cellular process	BP
GO:0048524	positive regulation of viral process	BP
GO:0048569	post-embryonic animal organ development	BP
GO:0048580	regulation of post-embryonic development	BP
GO:0048583	regulation of response to stimulus	BP
GO:0048584	positive regulation of response to stimulus	BP
GO:0048608	reproductive structure development	BP
GO:0048609	multicellular organismal reproductive process	BP
GO:0048699	generation of neurons	BP
GO:0048731	system development	BP
GO:0048856	anatomical structure development	BP
GO:0048869	cellular developmental process	BP
GO:0050434	positive regulation of viral transcription	BP
GO:0050681	nuclear androgen receptor binding	MF
GO:0050684	regulation of mRNA processing	BP
GO:0050685	positive regulation of mRNA processing	BP
GO:0050767	regulation of neurogenesis	BP
GO:0050769	positive regulation of neurogenesis	BP
GO:0050789	regulation of biological process	BP
GO:0050792	regulation of viral process	BP
GO:0050793	regulation of developmental process	BP
GO:0050794	regulation of cellular process	BP
GO:0050896	response to stimulus	BP
GO:0051094	positive regulation of developmental process	BP
GO:0051128	regulation of cellular component organization	BP
GO:0051130	positive regulation of cellular component organization	BP
GO:0051171	regulation of nitrogen compound metabolic process	BP
GO:0051172	negative regulation of nitrogen compound metabolic process	BP
GO:0051173	positive regulation of nitrogen compound metabolic process	BP
GO:0051239	regulation of multicellular organismal process	BP
GO:0051240	positive regulation of multicellular organismal process	BP
GO:0051246	regulation of protein metabolic process	BP
GO:0051247	positive regulation of protein metabolic process	BP
GO:0051252	regulation of RNA metabolic process	BP
GO:0051253	negative regulation of RNA metabolic process	BP
GO:0051254	positive regulation of RNA metabolic process	BP
GO:0051427	hormone receptor binding	MF
GO:0051569	regulation of histone H3-K4 methylation	BP
GO:0051571	positive regulation of histone H3-K4 methylation	BP
GO:0051702	biological process involved in interaction with symbiont	BP
GO:0051704	obsolete multi-organism process	BP
GO:0051716	cellular response to stimulus	BP
GO:0051817	obsolete modulation of process of other organism involved in symbiotic interaction	BP
GO:0051851	modulation by host of symbiont process	BP
GO:0051960	regulation of nervous system development	BP
GO:0051962	positive regulation of nervous system development	BP
GO:0052312	obsolete modulation of transcription in other organism involved in symbiotic interaction	BP
GO:0052472	modulation by host of symbiont transcription	BP
GO:0060065	uterus development	BP
GO:0060255	regulation of macromolecule metabolic process	BP
GO:0060284	regulation of cell development	BP
GO:0060429	epithelium development	BP
GO:0060537	muscle tissue development	BP
GO:0060538	skeletal muscle organ development	BP
GO:0061061	muscle structure development	BP
GO:0061458	reproductive system development	BP
GO:0065003	protein-containing complex assembly	BP
GO:0065007	biological regulation	BP
GO:0070013	intracellular organelle lumen	CC
GO:0070562	regulation of vitamin D receptor signaling pathway	BP
GO:0070564	positive regulation of vitamin D receptor signaling pathway	BP
GO:0070887	cellular response to chemical stimulus	BP
GO:0071007	U2-type catalytic step 2 spliceosome	CC
GO:0071013	catalytic step 2 spliceosome	CC
GO:0071014	post-mRNA release spliceosomal complex	CC
GO:0071141	SMAD protein complex	CC
GO:0071229	cellular response to acid chemical	BP
GO:0071300	cellular response to retinoic acid	BP
GO:0071310	cellular response to organic substance	BP
GO:0071396	cellular response to lipid	BP
GO:0071704	organic substance metabolic process	BP
GO:0071826	ribonucleoprotein complex subunit organization	BP
GO:0071840	cellular component organization or biogenesis	BP
GO:0072331	signal transduction by p53 class mediator	BP
GO:0072332	intrinsic apoptotic signaling pathway by p53 class mediator	BP
GO:0080090	regulation of primary metabolic process	BP
GO:0080134	regulation of response to stress	BP
GO:0090092	regulation of transmembrane receptor protein serine/threonine kinase signaling pathway	BP
GO:0090100	positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway	BP
GO:0090287	regulation of cellular response to growth factor stimulus	BP
GO:0090304	nucleic acid metabolic process	BP
GO:0097159	organic cyclic compound binding	MF
GO:0097190	apoptotic signaling pathway	BP
GO:0097193	intrinsic apoptotic signaling pathway	BP
GO:0097305	response to alcohol	BP
GO:0097659	nucleic acid-templated transcription	BP
GO:0140110	transcription regulator activity	MF
GO:1901000	regulation of response to salt stress	BP
GO:1901002	positive regulation of response to salt stress	BP
GO:1901360	organic cyclic compound metabolic process	BP
GO:1901362	organic cyclic compound biosynthetic process	BP
GO:1901363	heterocyclic compound binding	MF
GO:1901576	organic substance biosynthetic process	BP
GO:1901700	response to oxygen-containing compound	BP
GO:1901701	cellular response to oxygen-containing compound	BP
GO:1902275	regulation of chromatin organization	BP
GO:1902494	catalytic complex	CC
GO:1902584	positive regulation of response to water deprivation	BP
GO:1902679	negative regulation of RNA biosynthetic process	BP
GO:1902680	positive regulation of RNA biosynthetic process	BP
GO:1903311	regulation of mRNA metabolic process	BP
GO:1903313	positive regulation of mRNA metabolic process	BP
GO:1903506	regulation of nucleic acid-templated transcription	BP
GO:1903507	negative regulation of nucleic acid-templated transcription	BP
GO:1903508	positive regulation of nucleic acid-templated transcription	BP
GO:1903844	regulation of cellular response to transforming growth factor beta stimulus	BP
GO:1903846	positive regulation of cellular response to transforming growth factor beta stimulus	BP
GO:1905269	positive regulation of chromatin organization	BP
GO:1990904	ribonucleoprotein complex	CC
GO:2000026	regulation of multicellular organismal development	BP
GO:2000028	regulation of photoperiodism, flowering	BP
GO:2000070	regulation of response to water deprivation	BP
GO:2000112	regulation of cellular macromolecule biosynthetic process	BP
GO:2000113	negative regulation of cellular macromolecule biosynthetic process	BP
GO:2000241	regulation of reproductive process	BP
GO:2001141	regulation of RNA biosynthetic process	BP
GO:2001252	positive regulation of chromosome organization	BP

KEGG Term	Name	Description
map03040	Spliceosome	After transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, the spliceosome. The standard spliceosome is made up of five small nuclear ribonucleoproteins (snRNPs), U1, U2, U4, U5, and U6 snRNPs, and several spliceosome-associated proteins (SAPs). Spliceosomes are not a simple stable complex, but a dynamic family of particles that assemble on the mRNA precursor and help fold it into a conformation that allows transesterification to proceed. Various spliceosome forms (e.g. A-, B- and C-complexes) have been identified.