PPGR - Gene Detail

Basic Information

Gene Structure

Domain

Regulation&
Interaction

Annotation

Orthologus Group

Pathway

Basic Information

Gene ID	Prupe.5G141500.v2.1.g View in Genome Browser
Position	Pp05:13150979-13151962 (+) 983bp
Gene Type	gene
Gene Description (Protein Product)	RNA binding
Organism	Prunus persica
Also AS	AT2G21660PRUPE_5G141500

upstream:

Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)	Prupe.6G191400.v2.1.g polyadenylate-binding protein Prupe.8G045900.v2.1.g Cleavage stimulation factor Prupe.8G043700.v2.1.g Binds the poly(A) tail of mRNA
Regulatory gene	Prupe.1G001700.v2.1.g transcription factor Prupe.1G008400.v2.1.g ethylene-responsive transcription factor Prupe.1G037800.v2.1.g ethylene-responsive transcription factor

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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:0001558	regulation of cell growth	BP
GO:0003674	molecular_function	MF
GO:0003676	nucleic acid binding	MF
GO:0003723	RNA binding	MF
GO:0003727	single-stranded RNA binding	MF
GO:0003729	mRNA binding	MF
GO:0003730	mRNA 3'-UTR 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:0005654	nucleoplasm	CC
GO:0005730	nucleolus	CC
GO:0005737	cytoplasm	CC
GO:0006139	nucleobase-containing compound metabolic process	BP
GO:0006396	RNA processing	BP
GO:0006412	translation	BP
GO:0006417	regulation of translation	BP
GO:0006518	peptide metabolic process	BP
GO:0006725	cellular aromatic compound metabolic process	BP
GO:0006807	nitrogen compound metabolic process	BP
GO:0006950	response to stress	BP
GO:0006996	organelle organization	BP
GO:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0008187	poly-pyrimidine tract binding	MF
GO:0008266	poly(U) RNA binding	MF
GO:0009058	biosynthetic process	BP
GO:0009059	macromolecule biosynthetic process	BP
GO:0009266	response to temperature stimulus	BP
GO:0009314	response to radiation	BP
GO:0009409	response to cold	BP
GO:0009411	response to UV	BP
GO:0009416	response to light stimulus	BP
GO:0009628	response to abiotic stimulus	BP
GO:0009889	regulation of biosynthetic process	BP
GO:0009890	negative regulation of biosynthetic process	BP
GO:0009891	positive regulation of biosynthetic process	BP
GO:0009892	negative regulation of metabolic process	BP
GO:0009893	positive regulation of metabolic process	BP
GO:0009894	regulation of catabolic process	BP
GO:0009895	negative regulation of catabolic process	BP
GO:0009987	cellular process	BP
GO:0010033	response to organic substance	BP
GO:0010467	gene expression	BP
GO:0010468	regulation of gene expression	BP
GO:0010494	cytoplasmic stress granule	CC
GO:0010556	regulation of macromolecule biosynthetic process	BP
GO:0010557	positive regulation of macromolecule biosynthetic process	BP
GO:0010558	negative regulation of macromolecule biosynthetic process	BP
GO:0010564	regulation of cell cycle process	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:0016043	cellular component organization	BP
GO:0016070	RNA metabolic process	BP
GO:0016441	post-transcriptional gene silencing	BP
GO:0016458	obsolete gene silencing	BP
GO:0017148	negative regulation of translation	BP
GO:0019219	regulation of nucleobase-containing compound metabolic process	BP
GO:0019222	regulation of metabolic process	BP
GO:0019538	protein metabolic process	BP
GO:0019843	rRNA binding	MF
GO:0022607	cellular component assembly	BP
GO:0022613	ribonucleoprotein complex biogenesis	BP
GO:0022618	ribonucleoprotein complex assembly	BP
GO:0030308	negative regulation of cell growth	BP
GO:0030371	translation repressor activity	MF
GO:0030425	dendrite	CC
GO:0031047	RNA-mediated gene silencing	BP
GO:0031050	ncRNA processing	BP
GO:0031323	regulation of cellular metabolic process	BP
GO:0031324	negative regulation of cellular metabolic process	BP
GO:0031325	positive regulation of cellular metabolic process	BP
GO:0031326	regulation of cellular biosynthetic process	BP
GO:0031327	negative regulation of cellular biosynthetic process	BP
GO:0031328	positive regulation of cellular biosynthetic process	BP
GO:0031329	regulation of cellular catabolic process	BP
GO:0031330	negative regulation of cellular catabolic process	BP
GO:0031974	membrane-enclosed lumen	CC
GO:0031981	nuclear lumen	CC
GO:0032268	regulation of protein metabolic process	BP
GO:0032269	negative regulation of protein metabolic process	BP
GO:0032270	positive regulation of protein metabolic process	BP
GO:0032991	protein-containing complex	CC
GO:0033554	cellular response to stress	BP
GO:0034063	stress granule assembly	BP
GO:0034248	regulation of amide metabolic process	BP
GO:0034249	negative regulation of amide metabolic process	BP
GO:0034250	positive regulation of amide metabolic process	BP
GO:0034622	protein-containing complex assembly	BP
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0034645	cellular macromolecule biosynthetic process	BP
GO:0035194	RNA-mediated post-transcriptional gene silencing	BP
GO:0035195	miRNA-mediated gene silencing	BP
GO:0035196	miRNA processing	BP
GO:0035770	ribonucleoprotein granule	CC
GO:0036464	cytoplasmic ribonucleoprotein granule	CC
GO:0036477	somatodendritic compartment	CC
GO:0040008	regulation of growth	BP
GO:0040029	epigenetic regulation of gene expression	BP
GO:0042221	response to chemical	BP
GO:0042995	cell projection	CC
GO:0043005	neuron projection	CC
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:0043331	response to dsRNA	BP
GO:0043487	regulation of RNA stability	BP
GO:0043488	regulation of mRNA stability	BP
GO:0043489	RNA stabilization	BP
GO:0043603	amide metabolic process	BP
GO:0043604	amide biosynthetic process	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: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:0044446	obsolete intracellular organelle part	CC
GO:0044463	obsolete cell projection part	CC
GO:0044464	obsolete cell part	CC
GO:0044877	protein-containing complex binding	MF
GO:0045182	translation regulator activity	MF
GO:0045727	positive regulation of translation	BP
GO:0045926	negative regulation of growth	BP
GO:0045934	negative regulation of nucleobase-containing compound metabolic process	BP
GO:0046483	heterocycle metabolic process	BP
GO:0048255	mRNA stabilization	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:0048523	negative regulation of cellular process	BP
GO:0050789	regulation of biological process	BP
GO:0050794	regulation of cellular process	BP
GO:0050896	response to stimulus	BP
GO:0051128	regulation of cellular component organization	BP
GO:0051171	regulation of nitrogen compound metabolic process	BP
GO:0051172	negative regulation of nitrogen compound metabolic process	BP
GO:0051173	positive regulation of nitrogen compound metabolic process	BP
GO:0051246	regulation of protein metabolic process	BP
GO:0051247	positive regulation of protein metabolic process	BP
GO:0051248	negative regulation of protein metabolic process	BP
GO:0051252	regulation of RNA metabolic process	BP
GO:0051253	negative regulation of RNA metabolic process	BP
GO:0051716	cellular response to stimulus	BP
GO:0051726	regulation of cell cycle	BP
GO:0060255	regulation of macromolecule metabolic process	BP
GO:0061013	regulation of mRNA catabolic process	BP
GO:0065003	protein-containing complex assembly	BP
GO:0065007	biological regulation	BP
GO:0065008	regulation of biological quality	BP
GO:0070013	intracellular organelle lumen	CC
GO:0070181	small ribosomal subunit rRNA binding	MF
GO:0070417	cellular response to cold	BP
GO:0070887	cellular response to chemical stimulus	BP
GO:0070918	regulatory ncRNA processing	BP
GO:0070925	organelle assembly	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: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:0097447	dendritic tree	CC
GO:0097458	obsolete neuron part	CC
GO:0120025	plasma membrane bounded cell projection	CC
GO:0120038	obsolete plasma membrane bounded cell projection part	CC
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:1901698	response to nitrogen compound	BP
GO:1901699	cellular response to nitrogen compound	BP
GO:1901987	regulation of cell cycle phase transition	BP
GO:1902369	negative regulation of RNA catabolic process	BP
GO:1902373	negative regulation of mRNA catabolic process	BP
GO:1902806	regulation of cell cycle G1/S phase transition	BP
GO:1903311	regulation of mRNA metabolic process	BP
GO:1903312	negative regulation of mRNA metabolic process	BP
GO:1990904	ribonucleoprotein complex	CC
GO:2000112	regulation of cellular macromolecule biosynthetic process	BP
GO:2000113	negative regulation of cellular macromolecule biosynthetic process	BP

KEGG Term	Name	Description
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.
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.