PPGR - Gene Detail

Basic Information

Gene ID	gene-GBA52_025476 View in Genome Browser
Position	CM035472.1:27547353-27548268 (-) 915bp
Gene Type	gene
Gene Description (Protein Product)	Required for endonucleolytic cleavage during polyadenylation-dependent pre-mRNA 3'-end formation
Organism	Prunus armeniaca
Also AS	MD17G1047000AT3G04680PRUPE_3G272100

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)

gene-GBA52_026076 Cleavage stimulation factor

gene-GBA52_027135 General transcription factor 3C polypeptide

gene-GBA52_026826 General transcription factor 3C polypeptide

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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:0000394	RNA splicing, via endonucleolytic cleavage and ligation	BP
GO:0003006	developmental process involved in reproduction	BP
GO:0003674	molecular_function	MF
GO:0003824	catalytic activity	MF
GO:0005575	cellular_component	CC
GO:0005622	intracellular anatomical structure	CC
GO:0005623	obsolete cell	CC
GO:0005634	nucleus	CC
GO:0006139	nucleobase-containing compound metabolic process	BP
GO:0006378	mRNA polyadenylation	BP
GO:0006379	mRNA cleavage	BP
GO:0006388	tRNA splicing, via endonucleolytic cleavage and ligation	BP
GO:0006396	RNA processing	BP
GO:0006397	mRNA processing	BP
GO:0006399	tRNA metabolic process	BP
GO:0006725	cellular aromatic compound metabolic process	BP
GO:0006793	phosphorus metabolic process	BP
GO:0006796	phosphate-containing compound metabolic process	BP
GO:0006807	nitrogen compound metabolic process	BP
GO:0007275	multicellular organism development	BP
GO:0008033	tRNA processing	BP
GO:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0008380	RNA splicing	BP
GO:0009791	post-embryonic development	BP
GO:0009908	flower development	BP
GO:0009987	cellular process	BP
GO:0010228	vegetative to reproductive phase transition of meristem	BP
GO:0010467	gene expression	BP
GO:0016070	RNA metabolic process	BP
GO:0016071	mRNA metabolic process	BP
GO:0016301	kinase activity	MF
GO:0016310	phosphorylation	BP
GO:0016740	transferase activity	MF
GO:0016772	transferase activity, transferring phosphorus-containing groups	MF
GO:0016773	phosphotransferase activity, alcohol group as acceptor	MF
GO:0019205	nucleobase-containing compound kinase activity	MF
GO:0022414	reproductive process	BP
GO:0031123	RNA 3'-end processing	BP
GO:0031124	mRNA 3'-end processing	BP
GO:0032501	multicellular organismal process	BP
GO:0032502	developmental process	BP
GO:0034470	ncRNA processing	BP
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0034660	ncRNA 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:0043631	RNA polyadenylation	BP
GO:0044237	cellular metabolic process	BP
GO:0044238	primary metabolic process	BP
GO:0044424	obsolete intracellular part	CC
GO:0044464	obsolete cell part	CC
GO:0046483	heterocycle metabolic process	BP
GO:0048367	shoot system development	BP
GO:0048608	reproductive structure development	BP
GO:0048731	system development	BP
GO:0048827	phyllome development	BP
GO:0048856	anatomical structure development	BP
GO:0051731	polynucleotide 5'-hydroxyl-kinase activity	MF
GO:0061458	reproductive system development	BP
GO:0071704	organic substance metabolic process	BP
GO:0090304	nucleic acid metabolic process	BP
GO:0090305	nucleic acid phosphodiester bond hydrolysis	BP
GO:0090501	RNA phosphodiester bond hydrolysis	BP
GO:0090567	reproductive shoot system development	BP
GO:0099402	plant organ development	BP
GO:1901360	organic cyclic compound metabolic process	BP

KEGG Term	Name	Description
map03015	mRNA surveillance pathway	The mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go decay (NGD). NMD is a mechanism that eliminates mRNAs containing premature translation-termination codons (PTCs). In vertebrates, PTCs trigger efficient NMD when located upstream of an exon junction complex (EJC). Upf3, together with Upf1 and Upf2, may signal the presence of the PTC to the 5'end of the transcript, resulting in decapping and rapid exonucleolytic digestion of the mRNA. In the NSD pathway, which targets mRNAs lacking termination codons, the ribosome is believed to translate through the 3' untranslated region and stall at the end of the poly(A) tail. NSD involves an eRF3-like protein, Ski7p, which is hypothesized to bind the empty A site of the ribosome and recruit the exosome to degrade the mRNA from the 3' end. NGD targets mRNAs with stalls in translation elongation for endonucleolytic cleavage in a process involving the Dom34 and Hbs1 proteins.