Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Expresssion
Pathway
Basic Information
Gene ID
PtQG43330
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Position
chr12:1374042303-1374145372 (-)
103069bp
Gene Type
gene
Gene Description (Protein Product)
Exosome complex component
Organism
Pinus tabuliformis
Also AS AT3G60500

Gene Structure

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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
PtXG52820 PMC2NT (NUC016) domain
PtXG14260 WD repeat-containing protein
PtXG46930 DEK C terminal domain
Regulatory gene
Pt0G01630 dof zinc finger protein
Pt0G07980 dof zinc finger protein
Pt1G66310 Dof domain, zinc finger

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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)


Pathway
Go Pathway KEGG Pathway
GO Term Description GO Category
GO:0000175 3'-5'-RNA exonuclease activity MF
GO:0000176 nuclear exosome (RNase complex) CC
GO:0000177 cytoplasmic exosome (RNase complex) CC
GO:0000178 exosome (RNase complex) CC
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay BP
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay BP
GO:0000291 nuclear-transcribed mRNA catabolic process, exonucleolytic BP
GO:0000459 exonucleolytic trimming involved in rRNA processing BP
GO:0000460 maturation of 5.8S rRNA BP
GO:0000466 maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) BP
GO:0000467 exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) BP
GO:0000469 cleavage involved in rRNA processing BP
GO:0000956 nuclear-transcribed mRNA catabolic process BP
GO:0003674 molecular_function MF
GO:0003676 nucleic acid binding MF
GO:0003723 RNA binding MF
GO:0003824 catalytic activity MF
GO:0004518 nuclease activity MF
GO:0004527 exonuclease activity MF
GO:0004532 exoribonuclease activity MF
GO:0004540 ribonuclease activity 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:0005737 cytoplasm CC
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0006364 rRNA processing BP
GO:0006396 RNA processing BP
GO:0006399 tRNA metabolic process BP
GO:0006401 RNA catabolic process BP
GO:0006402 mRNA catabolic process 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:0008408 3'-5' exonuclease activity MF
GO:0009056 catabolic process BP
GO:0009057 macromolecule catabolic process BP
GO:0009892 negative regulation of metabolic process BP
GO:0009987 cellular process BP
GO:0010467 gene expression BP
GO:0010468 regulation of gene expression BP
GO:0010605 negative regulation of macromolecule metabolic process BP
GO:0010629 negative regulation of gene expression BP
GO:0016070 RNA metabolic process BP
GO:0016071 mRNA metabolic process BP
GO:0016072 rRNA metabolic process BP
GO:0016073 snRNA metabolic process BP
GO:0016075 rRNA catabolic process BP
GO:0016078 tRNA catabolic process BP
GO:0016180 snRNA processing BP
GO:0016787 hydrolase activity MF
GO:0016788 hydrolase activity, acting on ester bonds MF
GO:0016796 exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters MF
GO:0016896 RNA exonuclease activity, producing 5'-phosphomonoesters MF
GO:0017091 mRNA 3'-UTR AU-rich region binding MF
GO:0019222 regulation of metabolic process BP
GO:0019439 aromatic compound catabolic process BP
GO:0022613 ribonucleoprotein complex biogenesis BP
GO:0031123 RNA 3'-end processing BP
GO:0031125 rRNA 3'-end processing BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032991 protein-containing complex CC
GO:0034427 nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' BP
GO:0034470 ncRNA processing BP
GO:0034472 snRNA 3'-end processing BP
GO:0034473 U1 snRNA 3'-end processing BP
GO:0034475 U4 snRNA 3'-end processing BP
GO:0034476 U5 snRNA 3'-end processing BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0034655 nucleobase-containing compound catabolic process BP
GO:0034660 ncRNA metabolic process BP
GO:0034661 ncRNA catabolic process BP
GO:0042254 ribosome biogenesis 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:0043233 organelle lumen CC
GO:0043628 regulatory ncRNA 3'-end processing BP
GO:0043632 modification-dependent macromolecule catabolic process BP
GO:0043633 polyadenylation-dependent RNA catabolic process BP
GO:0043634 polyadenylation-dependent ncRNA catabolic process BP
GO:0043928 exonucleolytic catabolism of deadenylated mRNA BP
GO:0044085 cellular component biogenesis BP
GO:0044237 cellular metabolic process BP
GO:0044238 primary metabolic process BP
GO:0044248 cellular catabolic process BP
GO:0044260 cellular macromolecule metabolic process BP
GO:0044265 cellular macromolecule catabolic process BP
GO:0044270 cellular nitrogen compound catabolic 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:0046700 heterocycle catabolic process BP
GO:0048519 negative regulation of biological process BP
GO:0050789 regulation of biological process BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0065007 biological regulation BP
GO:0070013 intracellular organelle lumen CC
GO:0070478 nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay BP
GO:0070481 nuclear-transcribed mRNA catabolic process, non-stop decay BP
GO:0070651 nonfunctional rRNA decay BP
GO:0071025 RNA surveillance BP
GO:0071027 nuclear RNA surveillance BP
GO:0071028 nuclear mRNA surveillance BP
GO:0071029 nuclear ncRNA surveillance BP
GO:0071035 nuclear polyadenylation-dependent rRNA catabolic process BP
GO:0071038 nuclear polyadenylation-dependent tRNA catabolic process BP
GO:0071042 nuclear polyadenylation-dependent mRNA catabolic process BP
GO:0071046 nuclear polyadenylation-dependent ncRNA catabolic process BP
GO:0071047 polyadenylation-dependent mRNA catabolic process BP
GO:0071704 organic substance metabolic process BP
GO:0071840 cellular component organization or biogenesis BP
GO:0090304 nucleic acid metabolic process BP
GO:0090305 nucleic acid phosphodiester bond hydrolysis BP
GO:0090501 RNA phosphodiester bond hydrolysis BP
GO:0090503 RNA phosphodiester bond hydrolysis, exonucleolytic BP
GO:0097159 organic cyclic compound binding MF
GO:0140098 catalytic activity, acting on RNA MF
GO:1901360 organic cyclic compound metabolic process BP
GO:1901361 organic cyclic compound catabolic process BP
GO:1901363 heterocyclic compound binding MF
GO:1901575 organic substance catabolic process BP
GO:1902494 catalytic complex CC
GO:1905354 exoribonuclease complex CC
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.