PPGR - Gene Detail

Basic Information

Gene Structure

Domain

Regulation&
Interaction

Annotation

Orthologus Group

Expresssion

Pathway

Basic Information

Gene ID	Pop_G10G047779 View in Genome Browser
Position	chrG10:5433044-5442350 (+) 9306bp
Gene Type	gene
Gene Description (Protein Product)	Pre-mRNA-splicing factor ATP-dependent RNA helicase
Organism	Populus alba x Populus glandulosa
Also AS	Potri.010G172500AT5G13010Potri.010G172500.v4.1

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)	Pop_UnG052871 THO complex subunit Pop_G19G021921 THO complex subunit Pop_UnG052870 THO complex subunit
Regulatory gene	Pop_A01G003796 isoform X1 Pop_A01G003952 transcription factor Pop_A01G004056 dnaJ homolog subfamily C member

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Annotation

Orthologous Group

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

Expression Profile

DataSet	Number of Samples expressed(TPM>1)	Mean	Min	Max	Standard deviation(SD)	Coeffcient variation(CV)

Select Expression

Pathway

GO Term	Description	GO Category
GO:0000003	reproduction	BP
GO:0000375	RNA splicing, via transesterification reactions	BP
GO:0000377	RNA splicing, via transesterification reactions with bulged adenosine as nucleophile	BP
GO:0000398	mRNA splicing, via spliceosome	BP
GO:0002376	immune system process	BP
GO:0003002	regionalization	BP
GO:0003006	developmental process involved in reproduction	BP
GO:0003674	molecular_function	MF
GO:0003676	nucleic acid binding	MF
GO:0003723	RNA binding	MF
GO:0003724	RNA helicase activity	MF
GO:0003824	catalytic activity	MF
GO:0004004	RNA helicase activity	MF
GO:0004386	helicase activity	MF
GO:0005488	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:0005737	cytoplasm	CC
GO:0006139	nucleobase-containing compound metabolic process	BP
GO:0006396	RNA processing	BP
GO:0006397	mRNA processing	BP
GO:0006403	RNA localization	BP
GO:0006405	RNA export from nucleus	BP
GO:0006406	mRNA export from nucleus	BP
GO:0006611	protein export from nucleus	BP
GO:0006725	cellular aromatic compound metabolic process	BP
GO:0006807	nitrogen compound metabolic process	BP
GO:0006810	transport	BP
GO:0006886	intracellular protein transport	BP
GO:0006913	nucleocytoplasmic transport	BP
GO:0006950	response to stress	BP
GO:0006952	defense response	BP
GO:0006955	immune response	BP
GO:0007275	multicellular organism development	BP
GO:0007389	pattern specification process	BP
GO:0008026	helicase activity	MF
GO:0008104	protein localization	BP
GO:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0008186	ATP-dependent activity, acting on RNA	MF
GO:0008380	RNA splicing	BP
GO:0009605	response to external stimulus	BP
GO:0009607	response to biotic stimulus	BP
GO:0009620	response to fungus	BP
GO:0009653	anatomical structure morphogenesis	BP
GO:0009790	embryo development	BP
GO:0009791	post-embryonic development	BP
GO:0009793	embryo development ending in seed dormancy	BP
GO:0009814	defense response to other organism	BP
GO:0009817	defense response to fungus	BP
GO:0009888	tissue development	BP
GO:0009892	negative regulation of metabolic process	BP
GO:0009893	positive regulation of metabolic process	BP
GO:0009987	cellular process	BP
GO:0010015	root morphogenesis	BP
GO:0010033	response to organic substance	BP
GO:0010051	xylem and phloem pattern formation	BP
GO:0010053	root epidermal cell differentiation	BP
GO:0010054	trichoblast differentiation	BP
GO:0010154	fruit development	BP
GO:0010467	gene expression	BP
GO:0010468	regulation of gene expression	BP
GO:0010604	positive regulation of macromolecule metabolic process	BP
GO:0010605	negative regulation of macromolecule metabolic process	BP
GO:0010608	post-transcriptional regulation of gene expression	BP
GO:0010628	positive regulation of gene expression	BP
GO:0010629	negative regulation of gene expression	BP
GO:0014070	response to organic cyclic compound	BP
GO:0015031	protein transport	BP
GO:0015833	peptide transport	BP
GO:0015931	nucleobase-containing compound transport	BP
GO:0016049	cell growth	BP
GO:0016070	RNA metabolic process	BP
GO:0016071	mRNA metabolic process	BP
GO:0016246	RNA-mediated post-transcriptional gene silencing	BP
GO:0016441	post-transcriptional gene silencing	BP
GO:0016458	obsolete gene silencing	BP
GO:0016462	pyrophosphatase activity	MF
GO:0016787	hydrolase activity	MF
GO:0016817	hydrolase activity, acting on acid anhydrides	MF
GO:0016818	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	MF
GO:0016887	ATP hydrolysis activity	MF
GO:0017111	ribonucleoside triphosphate phosphatase activity	MF
GO:0019219	regulation of nucleobase-containing compound metabolic process	BP
GO:0019222	regulation of metabolic process	BP
GO:0021700	developmental maturation	BP
GO:0022414	reproductive process	BP
GO:0022622	root system development	BP
GO:0030154	cell differentiation	BP
GO:0031047	RNA-mediated gene silencing	BP
GO:0031050	ncRNA processing	BP
GO:0031053	primary miRNA processing	BP
GO:0031123	RNA 3'-end processing	BP
GO:0031124	mRNA 3'-end processing	BP
GO:0031323	regulation of cellular metabolic process	BP
GO:0031325	positive regulation of cellular metabolic process	BP
GO:0031503	protein-containing complex localization	BP
GO:0031974	membrane-enclosed lumen	CC
GO:0031981	nuclear lumen	CC
GO:0032501	multicellular organismal process	BP
GO:0032502	developmental process	BP
GO:0032991	protein-containing complex	CC
GO:0033036	macromolecule localization	BP
GO:0033120	positive regulation of RNA splicing	BP
GO:0034470	ncRNA processing	BP
GO:0034613	protein localization	BP
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0034660	ncRNA metabolic process	BP
GO:0035194	RNA-mediated post-transcriptional gene silencing	BP
GO:0035195	miRNA-mediated gene silencing	BP
GO:0035196	miRNA processing	BP
GO:0040007	growth	BP
GO:0040029	epigenetic regulation of gene expression	BP
GO:0042221	response to chemical	BP
GO:0042623	ATP hydrolysis activity	MF
GO:0042886	amide transport	BP
GO:0043170	macromolecule metabolic process	BP
GO:0043207	response to external biotic stimulus	BP
GO:0043226	organelle	CC
GO:0043227	membrane-bounded organelle	CC
GO:0043229	intracellular organelle	CC
GO:0043231	intracellular membrane-bounded organelle	CC
GO:0043233	organelle lumen	CC
GO:0043331	response to dsRNA	BP
GO:0043484	regulation of RNA splicing	BP
GO:0044237	cellular metabolic process	BP
GO:0044238	primary metabolic process	BP
GO:0044422	obsolete organelle part	CC
GO:0044424	obsolete intracellular part	CC
GO:0044428	obsolete nuclear part	CC
GO:0044446	obsolete intracellular organelle part	CC
GO:0044464	obsolete cell part	CC
GO:0045087	innate immune response	BP
GO:0045184	establishment of protein localization	BP
GO:0045935	positive regulation of nucleobase-containing compound metabolic process	BP
GO:0046483	heterocycle metabolic process	BP
GO:0046907	intracellular transport	BP
GO:0048316	seed development	BP
GO:0048364	root development	BP
GO:0048468	cell development	BP
GO:0048469	cell maturation	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:0048588	developmental cell growth	BP
GO:0048589	developmental growth	BP
GO:0048608	reproductive structure development	BP
GO:0048731	system development	BP
GO:0048764	trichoblast maturation	BP
GO:0048765	root hair cell differentiation	BP
GO:0048767	root hair elongation	BP
GO:0048856	anatomical structure development	BP
GO:0048869	cellular developmental process	BP
GO:0050657	nucleic acid transport	BP
GO:0050658	RNA transport	BP
GO:0050789	regulation of biological process	BP
GO:0050794	regulation of cellular process	BP
GO:0050832	defense response to fungus	BP
GO:0050896	response to stimulus	BP
GO:0051028	mRNA transport	BP
GO:0051168	nuclear export	BP
GO:0051169	nuclear transport	BP
GO:0051171	regulation of nitrogen compound metabolic process	BP
GO:0051173	positive regulation of nitrogen compound metabolic process	BP
GO:0051179	localization	BP
GO:0051234	establishment of localization	BP
GO:0051236	establishment of RNA localization	BP
GO:0051252	regulation of RNA metabolic process	BP
GO:0051254	positive regulation of RNA metabolic process	BP
GO:0051641	cellular localization	BP
GO:0051649	establishment of localization in cell	BP
GO:0051704	obsolete multi-organism process	BP
GO:0051707	response to other organism	BP
GO:0051716	cellular response to stimulus	BP
GO:0060255	regulation of macromolecule metabolic process	BP
GO:0060560	developmental growth involved in morphogenesis	BP
GO:0061458	reproductive system development	BP
GO:0065007	biological regulation	BP
GO:0070013	intracellular organelle lumen	CC
GO:0070035	obsolete purine NTP-dependent helicase activity	MF
GO:0070727	cellular macromolecule localization	BP
GO:0070887	cellular response to chemical stimulus	BP
GO:0070918	regulatory ncRNA processing	BP
GO:0071013	catalytic step 2 spliceosome	CC
GO:0071166	ribonucleoprotein complex localization	BP
GO:0071310	cellular response to organic substance	BP
GO:0071359	cellular response to dsRNA	BP
GO:0071407	cellular response to organic cyclic compound	BP
GO:0071426	obsolete ribonucleoprotein complex export from nucleus	BP
GO:0071427	obsolete mRNA-containing ribonucleoprotein complex export from nucleus	BP
GO:0071695	anatomical structure maturation	BP
GO:0071702	organic substance transport	BP
GO:0071704	organic substance metabolic process	BP
GO:0071705	nitrogen compound transport	BP
GO:0080090	regulation of primary metabolic process	BP
GO:0080147	root hair cell development	BP
GO:0090304	nucleic acid metabolic process	BP
GO:0090558	plant epidermis development	BP
GO:0090627	plant epidermal cell differentiation	BP
GO:0097159	organic cyclic compound binding	MF
GO:0098542	defense response to other organism	BP
GO:0099402	plant organ development	BP
GO:0140098	catalytic activity, acting on RNA	MF
GO:1901360	organic cyclic compound metabolic process	BP
GO:1901363	heterocyclic compound binding	MF
GO:1901698	response to nitrogen compound	BP
GO:1901699	cellular response to nitrogen compound	BP
GO:1902494	catalytic complex	CC
GO:1905392	plant organ morphogenesis	BP
GO:1990904	ribonucleoprotein complex	CC

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.