PPGR - Gene Detail

Basic Information

Gene Structure

Domain

Regulation&
Interaction

Annotation

Orthologus Group

Expresssion

Pathway

Basic Information

Gene ID	Lchi11488.g View in Genome Browser
Position	Scaffold525:1857297-1881730 (+) 24433bp
Gene Type	gene
Gene Description (Protein Product)	ATP-dependent RNA helicase
Organism	Liriodendron chinense
Also AS	AT1G26370

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)	Lchi13729.g protein At4g01020, chloroplastic Lchi14128.g Splicing factor 3A subunit 3 Lchi23064.g U4 U6 small nuclear ribonucleoprotein PRP4-like protein
Regulatory gene	Lchi00913.g transcription factor Lchi01434.g transcription factor Lchi03106.g transcription factor

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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:0000182	rDNA binding	MF
GO:0001817	regulation of cytokine production	BP
GO:0001819	positive regulation of cytokine production	BP
GO:0001932	regulation of protein phosphorylation	BP
GO:0001934	positive regulation of protein phosphorylation	BP
GO:0003674	molecular_function	MF
GO:0003676	nucleic acid binding	MF
GO:0003677	DNA binding	MF
GO:0003690	double-stranded DNA binding	MF
GO:0003723	RNA binding	MF
GO:0003724	RNA helicase activity	MF
GO:0003725	double-stranded RNA binding	MF
GO:0003729	mRNA binding	MF
GO:0003824	catalytic activity	MF
GO:0004004	RNA helicase activity	MF
GO:0004386	helicase activity	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:0005730	nucleolus	CC
GO:0005737	cytoplasm	CC
GO:0005829	cytosol	CC
GO:0006139	nucleobase-containing compound metabolic process	BP
GO:0006355	regulation of DNA-templated transcription	BP
GO:0006356	regulation of transcription by RNA polymerase I	BP
GO:0006396	RNA processing	BP
GO:0006412	translation	BP
GO:0006413	translational initiation	BP
GO:0006518	peptide metabolic process	BP
GO:0006725	cellular aromatic compound metabolic process	BP
GO:0006807	nitrogen compound metabolic process	BP
GO:0008026	helicase activity	MF
GO:0008134	transcription factor binding	MF
GO:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0008186	ATP-dependent activity, acting on RNA	MF
GO:0009058	biosynthetic process	BP
GO:0009059	macromolecule biosynthetic process	BP
GO:0009889	regulation of biosynthetic process	BP
GO:0009891	positive regulation of biosynthetic 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:0010467	gene expression	BP
GO:0010468	regulation of gene expression	BP
GO:0010556	regulation of macromolecule biosynthetic process	BP
GO:0010557	positive regulation of macromolecule biosynthetic process	BP
GO:0010562	positive regulation of phosphorus metabolic process	BP
GO:0010604	positive regulation of macromolecule metabolic process	BP
GO:0010628	positive regulation of gene expression	BP
GO:0010646	regulation of cell communication	BP
GO:0010647	positive regulation of cell communication	BP
GO:0016070	RNA metabolic process	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:0019220	regulation of phosphate metabolic process	BP
GO:0019222	regulation of metabolic process	BP
GO:0019538	protein metabolic process	BP
GO:0023051	regulation of signaling	BP
GO:0023056	positive regulation of signaling	BP
GO:0031323	regulation of cellular metabolic process	BP
GO:0031325	positive regulation of cellular metabolic process	BP
GO:0031326	regulation of cellular biosynthetic process	BP
GO:0031328	positive regulation of cellular biosynthetic process	BP
GO:0031334	positive regulation of protein-containing complex assembly	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:0032268	regulation of protein metabolic process	BP
GO:0032270	positive regulation of protein metabolic process	BP
GO:0032479	regulation of type I interferon production	BP
GO:0032481	positive regulation of type I interferon production	BP
GO:0032991	protein-containing complex	CC
GO:0033613	DNA-binding transcription factor binding	MF
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0034645	cellular macromolecule biosynthetic process	BP
GO:0042325	regulation of phosphorylation	BP
GO:0042327	positive regulation of phosphorylation	BP
GO:0042623	ATP hydrolysis activity	MF
GO:0043021	ribonucleoprotein complex binding	MF
GO:0043023	ribosomal large subunit binding	MF
GO:0043043	peptide biosynthetic process	BP
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:0043254	regulation of protein-containing complex assembly	BP
GO:0043408	regulation of MAPK cascade	BP
GO:0043410	positive regulation of MAPK cascade	BP
GO:0043484	regulation of RNA splicing	BP
GO:0043565	sequence-specific DNA binding	MF
GO:0043603	amide metabolic process	BP
GO:0043604	amide biosynthetic process	BP
GO:0044087	regulation of cellular component biogenesis	BP
GO:0044089	positive regulation of cellular component biogenesis	BP
GO:0044093	positive regulation of molecular function	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:0044267	protein metabolic process	BP
GO:0044271	cellular nitrogen compound biosynthetic process	BP
GO:0044422	obsolete organelle part	CC
GO:0044424	obsolete intracellular part	CC
GO:0044428	obsolete nuclear part	CC
GO:0044444	obsolete cytoplasmic part	CC
GO:0044445	obsolete cytosolic part	CC
GO:0044446	obsolete intracellular organelle part	CC
GO:0044464	obsolete cell part	CC
GO:0044877	protein-containing complex binding	MF
GO:0045893	positive regulation of DNA-templated transcription	BP
GO:0045935	positive regulation of nucleobase-containing compound metabolic process	BP
GO:0045937	positive regulation of phosphate metabolic process	BP
GO:0045943	positive regulation of transcription by RNA polymerase I	BP
GO:0046483	heterocycle metabolic process	BP
GO:0048518	positive regulation of biological process	BP
GO:0048522	positive regulation of cellular process	BP
GO:0048583	regulation of response to stimulus	BP
GO:0048584	positive regulation of response to stimulus	BP
GO:0050789	regulation of biological process	BP
GO:0050794	regulation of cellular process	BP
GO:0051090	regulation of DNA-binding transcription factor activity	BP
GO:0051091	positive regulation of DNA-binding transcription factor activity	BP
GO:0051092	positive regulation of NF-kappaB transcription factor activity	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:0051173	positive regulation of nitrogen compound metabolic process	BP
GO:0051174	regulation of phosphorus 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:0051254	positive regulation of RNA metabolic process	BP
GO:0060255	regulation of macromolecule metabolic process	BP
GO:0061702	inflammasome complex	CC
GO:0065007	biological regulation	BP
GO:0065009	regulation of molecular function	BP
GO:0070013	intracellular organelle lumen	CC
GO:0070035	obsolete purine NTP-dependent helicase activity	MF
GO:0071704	organic substance metabolic process	BP
GO:0072559	NLRP3 inflammasome complex	CC
GO:0080090	regulation of primary metabolic process	BP
GO:0090304	nucleic acid metabolic process	BP
GO:0097159	organic cyclic compound binding	MF
GO:0140098	catalytic activity, acting on RNA	MF
GO:1900225	regulation of NLRP3 inflammasome complex assembly	BP
GO:1900227	positive regulation of NLRP3 inflammasome complex assembly	BP
GO:1901360	organic cyclic compound metabolic process	BP
GO:1901363	heterocyclic compound binding	MF
GO:1901564	organonitrogen compound metabolic process	BP
GO:1901566	organonitrogen compound biosynthetic process	BP
GO:1901576	organic substance biosynthetic process	BP
GO:1902531	regulation of intracellular signal transduction	BP
GO:1902533	positive regulation of intracellular signal transduction	BP
GO:1902680	positive regulation of RNA biosynthetic process	BP
GO:1903506	regulation of nucleic acid-templated transcription	BP
GO:1903508	positive regulation of nucleic acid-templated transcription	BP
GO:1990837	sequence-specific double-stranded DNA binding	MF
GO:2000112	regulation of cellular macromolecule biosynthetic process	BP
GO:2001141	regulation of RNA biosynthetic process	BP

KEGG Term	Name	Description
map03050	Proteasome	The proteasome is a protein-destroying apparatus involved in many essential cellular functions, such as regulation of cell cycle, cell differentiation, signal transduction pathways, antigen processing for appropriate immune responses, stress signaling, inflammatory responses, and apoptosis. It is capable of degrading a variety of cellular proteins in a rapid and timely fashion and most substrate proteins are modified by ubiquitin before their degradation by the proteasome. The proteasome is a large protein complex consisting of a proteolytic core called the 20S particle and ancillary factors that regulate its activity in various ways. The most common form is the 26S proteasome containing one 20S core particle and two 19S regulatory particles that enable the proteasome to degrade ubiquitinated proteins by an ATP-dependent mechanism. Another form is the immunoproteasome containing two 11S regulatory particles, PA28 alpha and PA28 beta, which are induced by interferon gamma under the conditions of intensified immune response. Other regulatory particles include PA28 gamma and PA200. Although PA28 gamma also belongs to a family of activators of the 20S proteasome, it is localized within the nucleus and forms a homoheptamer. PA28 gamma has been implicated in the regulation of cell cycle progression and apoptosis. PA200 has been identified as a large nuclear protein that stimulates proteasomal hydrolysis of peptides.
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.