PPGR - Gene Detail

Basic Information

Gene ID	gene-IMY05_016G0181900 View in Genome Browser
Position	CM029814.1:15516264-15520176 (+) 3912bp
Gene Type	gene
Gene Description (Protein Product)	"Component of LSM protein complexes
Organism	Salix suchowensis
Also AS	AT1G03330

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)

gene-IMY05_C1888002300 U6 snRNA-associated Sm-like protein

gene-IMY05_018G0096800 116 kDa U5 small nuclear ribonucleoprotein

gene-IMY05_019G0119800 Small nuclear ribonucleoprotein

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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: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:0000932	P-body	CC
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:0005688	U6 snRNP	CC
GO:0005737	cytoplasm	CC
GO:0005829	cytosol	CC
GO:0006139	nucleobase-containing compound metabolic process	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:0016070	RNA metabolic process	BP
GO:0016071	mRNA metabolic process	BP
GO:0030532	small nuclear ribonucleoprotein complex	CC
GO:0032991	protein-containing complex	CC
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0035770	ribonucleoprotein granule	CC
GO:0036464	cytoplasmic ribonucleoprotein granule	CC
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: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:0044444	obsolete cytoplasmic part	CC
GO:0044446	obsolete intracellular organelle part	CC
GO:0044464	obsolete cell part	CC
GO:0046483	heterocycle metabolic process	BP
GO:0046540	U4/U6 x U5 tri-snRNP complex	CC
GO:0071011	precatalytic spliceosome	CC
GO:0071013	catalytic step 2 spliceosome	CC
GO:0071704	organic substance metabolic process	BP
GO:0090304	nucleic acid metabolic process	BP
GO:0097525	spliceosomal snRNP complex	CC
GO:0097526	spliceosomal tri-snRNP complex	CC
GO:0120114	Sm-like protein family complex	CC
GO:1901360	organic cyclic compound metabolic process	BP
GO:1902494	catalytic complex	CC
GO:1990726	Lsm1-7-Pat1 complex	CC
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.
map03018	RNA degradation	The correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay exist and both pathways are initiated by poly(A) shortening of the mRNA. In the 5' to 3' pathway, this is followed by decapping which then permits the 5' to 3' exonucleolytic degradation of transcripts. In the 3' to 5' pathway, the exosome, a large multisubunit complex, plays a key role. The exosome exists in archaeal cells, too. In bacteria, endoribonuclease E, a key enzyme involved in RNA decay and processing, organizes a protein complex called degradosome. RNase E or R interacts with the phosphate-dependent exoribonuclease polynucleotide phosphorylase, DEAD-box helicases, and additional factors in the RNA-degrading complex.