PPGR - Gene Detail

Basic Information

Gene Structure

Domain

Regulation&
Interaction

Annotation

Orthologus Group

Expresssion

Pathway

Basic Information

Gene ID	PSME_15106.g
Position	jcf7190000011221:297646-298514 (+) 868bp
Gene Type	gene
Gene Description (Protein Product)	splicing factor 3A subunit 1
Organism	Pseudotsuga menziesii
Also AS	AT1G14650

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)	PSME_37632.g Small nuclear ribonucleoprotein PSME_23153.g Splicing factor 3B subunit PSME_24456.g Small nuclear ribonucleoprotein
Regulatory gene	PSME_00031.g ZINC FINGER protein PSME_00367.g Belongs to the GRAS family PSME_00402.g Belongs to the GRAS family

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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:0000245	spliceosomal complex assembly	BP
GO:0000375	RNA splicing, via transesterification reactions	BP
GO:0000377	RNA splicing, via transesterification reactions with bulged adenosine as nucleophile	BP
GO:0000381	regulation of alternative mRNA splicing, via spliceosome	BP
GO:0000389	mRNA 3'-splice site recognition	BP
GO:0000398	mRNA splicing, via spliceosome	BP
GO:0003674	molecular_function	MF
GO:0003676	nucleic acid binding	MF
GO:0003723	RNA binding	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:0005681	spliceosomal complex	CC
GO:0005684	U2-type spliceosomal complex	CC
GO:0005686	U2 snRNP	CC
GO:0006139	nucleobase-containing compound metabolic process	BP
GO:0006376	mRNA splice site selection	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:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0008380	RNA splicing	BP
GO:0009987	cellular process	BP
GO:0010467	gene expression	BP
GO:0010468	regulation of gene expression	BP
GO:0016043	cellular component organization	BP
GO:0016070	RNA metabolic process	BP
GO:0016071	mRNA metabolic process	BP
GO:0019219	regulation of nucleobase-containing compound metabolic process	BP
GO:0019222	regulation of metabolic process	BP
GO:0022607	cellular component assembly	BP
GO:0022613	ribonucleoprotein complex biogenesis	BP
GO:0022618	ribonucleoprotein complex assembly	BP
GO:0030532	small nuclear ribonucleoprotein complex	CC
GO:0031323	regulation of cellular metabolic process	BP
GO:0032991	protein-containing complex	CC
GO:0034622	protein-containing complex assembly	BP
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0043170	macromolecule metabolic process	BP
GO:0043226	organelle	CC
GO:0043227	membrane-bounded organelle	CC
GO:0043229	intracellular organelle	CC
GO:0043231	intracellular membrane-bounded organelle	CC
GO:0043484	regulation of RNA splicing	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: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:0046483	heterocycle metabolic process	BP
GO:0048024	regulation of mRNA splicing, via spliceosome	BP
GO:0050684	regulation of mRNA processing	BP
GO:0050789	regulation of biological process	BP
GO:0050794	regulation of cellular process	BP
GO:0051171	regulation of nitrogen compound metabolic process	BP
GO:0051252	regulation of RNA metabolic process	BP
GO:0060255	regulation of macromolecule metabolic process	BP
GO:0065003	protein-containing complex assembly	BP
GO:0065007	biological regulation	BP
GO:0071004	U2-type prespliceosome	CC
GO:0071010	prespliceosome	CC
GO:0071013	catalytic step 2 spliceosome	CC
GO:0071704	organic substance metabolic process	BP
GO:0071826	ribonucleoprotein complex subunit organization	BP
GO:0071840	cellular component organization or biogenesis	BP
GO:0080090	regulation of primary metabolic process	BP
GO:0090304	nucleic acid metabolic process	BP
GO:0097159	organic cyclic compound binding	MF
GO:0097525	spliceosomal snRNP complex	CC
GO:0120114	Sm-like protein family complex	CC
GO:1901360	organic cyclic compound metabolic process	BP
GO:1901363	heterocyclic compound binding	MF
GO:1902494	catalytic complex	CC
GO:1903311	regulation of mRNA metabolic process	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.