Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Pathway
Basic Information
Gene ID
gene-POTOM_059366
View in Genome Browser
Position
CM032005.1:13113327-13120596 (-)
7269bp
Gene Type
gene
Gene Description (Protein Product)
Regulator of nonsense transcripts
Organism
Populus tomentosa
Also AS Potri.019G077500AT1G33980Potri.019G077500.v4.1

Gene Structure

upstream:
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Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
gene-POTOM_060603 Nuclear cap-binding protein subunit
gene-POTOM_060471 Nuclear-pore
gene-POTOM_060472 Nuclear-pore

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Annotation

Orthologous Group
Orthologous ID Species Number All hits in PereRegDB Hits of this species Orthologous Detail


Pathway
Go Pathway KEGG Pathway
GO Term Description GO Category
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay BP
GO:0000956 nuclear-transcribed mRNA catabolic process BP
GO:0001101 response to acid chemical BP
GO:0003674 molecular_function MF
GO:0003676 nucleic acid binding MF
GO:0003723 RNA binding MF
GO:0003729 mRNA 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:0005730 nucleolus CC
GO:0006139 nucleobase-containing compound 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:0006950 response to stress BP
GO:0006952 defense response BP
GO:0007154 cell communication BP
GO:0007165 signal transduction BP
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0009056 catabolic process BP
GO:0009057 macromolecule catabolic process BP
GO:0009314 response to radiation BP
GO:0009416 response to light stimulus BP
GO:0009605 response to external stimulus BP
GO:0009607 response to biotic stimulus BP
GO:0009611 response to wounding BP
GO:0009617 response to bacterium BP
GO:0009628 response to abiotic stimulus BP
GO:0009648 photoperiodism BP
GO:0009719 response to endogenous stimulus BP
GO:0009725 response to hormone BP
GO:0009751 response to salicylic acid BP
GO:0009753 response to jasmonic acid BP
GO:0009755 hormone-mediated signaling pathway BP
GO:0009863 salicylic acid mediated signaling pathway BP
GO:0009867 jasmonic acid mediated signaling pathway BP
GO:0009892 negative regulation of metabolic process BP
GO:0009987 cellular process BP
GO:0010033 response to organic substance 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:0014070 response to organic cyclic compound BP
GO:0016070 RNA metabolic process BP
GO:0016071 mRNA metabolic process BP
GO:0019222 regulation of metabolic process BP
GO:0019439 aromatic compound catabolic process BP
GO:0023052 signaling BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032870 cellular response to hormone stimulus BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0034655 nucleobase-containing compound catabolic process BP
GO:0035690 cellular response to xenobiotic stimulus BP
GO:0042221 response to chemical BP
GO:0042493 response to xenobiotic stimulus BP
GO:0042742 defense response to bacterium BP
GO:0043170 macromolecule metabolic process BP
GO:0043207 response to external biotic stimulus 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: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:0044446 obsolete intracellular organelle part CC
GO:0044464 obsolete cell part CC
GO:0046483 heterocycle metabolic process BP
GO:0046677 response to antibiotic BP
GO:0046700 heterocycle catabolic process BP
GO:0048519 negative regulation of biological process BP
GO:0048571 long-day photoperiodism BP
GO:0050789 regulation of biological process BP
GO:0050794 regulation of cellular process BP
GO:0050896 response to stimulus BP
GO:0051704 obsolete multi-organism process BP
GO:0051707 response to other organism BP
GO:0051716 cellular response to stimulus BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0065007 biological regulation BP
GO:0070013 intracellular organelle lumen CC
GO:0070887 cellular response to chemical stimulus BP
GO:0071229 cellular response to acid chemical BP
GO:0071236 cellular response to antibiotic BP
GO:0071310 cellular response to organic substance BP
GO:0071395 cellular response to jasmonic acid stimulus BP
GO:0071407 cellular response to organic cyclic compound BP
GO:0071446 cellular response to salicylic acid stimulus BP
GO:0071495 cellular response to endogenous stimulus BP
GO:0071704 organic substance metabolic process BP
GO:0090304 nucleic acid metabolic process BP
GO:0097159 organic cyclic compound binding MF
GO:0098542 defense response to other organism BP
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:1901700 response to oxygen-containing compound BP
GO:1901701 cellular response to oxygen-containing compound 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.
map03013 RNA transport RNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) via mobile export receptors. The majority of RNAs, such as tRNAs, rRNAs, and U snRNAs, are transported by specific export receptors, which belong to the karyopherin-beta family proteins. A feature of karyopherins is their regulation by the small GTPase Ran. However, general mRNA export is mechanistically different. Nuclear export of mRNAs is functionally coupled to different steps in gene expression processes, such as transcription, splicing, 3'-end formation and even translation.