Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Pathway
Basic Information
Gene ID
gene-IMY05_C4480000600
View in Genome Browser
Position
JAEQKX010000691.1:16711-20423 (+)
3712bp
Gene Type
gene
Gene Description (Protein Product)
AAA domain
Organism
Salix suchowensis
Also AS AT5G47010

Gene Structure

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

Regulation&Interaction
Protein-protein interaction (PPI)
gene-IMY05_C4912000500 Elongation factor Tu C-terminal domain
gene-IMY05_C4814000400 Serine threonine-protein kinase TOR
gene-IMY05_C4814000300 atypical PIKK FRAP protein kinase

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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:0000166 nucleotide binding MF
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:0000956 nuclear-transcribed mRNA catabolic process BP
GO:0003674 molecular_function MF
GO:0003676 nucleic acid binding MF
GO:0003723 RNA binding MF
GO:0003724 RNA helicase activity MF
GO:0003729 mRNA binding MF
GO:0003824 catalytic activity MF
GO:0004004 RNA helicase activity MF
GO:0004386 helicase activity MF
GO:0005488 binding MF
GO:0005524 ATP binding MF
GO:0005575 cellular_component CC
GO:0005622 intracellular anatomical structure CC
GO:0005623 obsolete cell CC
GO:0005737 cytoplasm CC
GO:0005844 polysome CC
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0006259 DNA metabolic process BP
GO:0006310 DNA recombination BP
GO:0006325 chromatin organization BP
GO:0006342 heterochromatin formation BP
GO:0006355 regulation of DNA-templated transcription BP
GO:0006401 RNA catabolic process BP
GO:0006402 mRNA catabolic process BP
GO:0006403 RNA localization BP
GO:0006417 regulation of translation BP
GO:0006449 regulation of translational termination BP
GO:0006464 protein modification process BP
GO:0006725 cellular aromatic compound metabolic process BP
GO:0006807 nitrogen compound metabolic process BP
GO:0006950 response to stress BP
GO:0006979 response to oxidative stress BP
GO:0006996 organelle organization BP
GO:0008026 helicase activity MF
GO:0008144 obsolete drug binding MF
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0008186 ATP-dependent activity, acting on RNA MF
GO:0008298 intracellular mRNA localization BP
GO:0009056 catabolic process BP
GO:0009057 macromolecule catabolic process BP
GO:0009889 regulation of biosynthetic process BP
GO:0009890 negative regulation of biosynthetic process BP
GO:0009892 negative regulation of metabolic process BP
GO:0009894 regulation of catabolic process BP
GO:0009987 cellular process BP
GO:0010468 regulation of gene expression BP
GO:0010556 regulation of macromolecule biosynthetic process BP
GO:0010558 negative regulation of macromolecule biosynthetic process BP
GO:0010605 negative regulation of macromolecule metabolic process BP
GO:0010608 post-transcriptional regulation of gene expression BP
GO:0010610 regulation of mRNA stability involved in response to stress BP
GO:0010629 negative regulation of gene expression BP
GO:0016043 cellular component organization BP
GO:0016070 RNA metabolic process BP
GO:0016071 mRNA metabolic process BP
GO:0016458 obsolete gene silencing BP
GO:0016462 pyrophosphatase activity MF
GO:0016567 protein ubiquitination BP
GO:0016787 hydrolase activity MF
GO:0016817 hydrolase activity, acting on acid anhydrides MF
GO:0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides MF
GO:0016887 ATP hydrolysis activity MF
GO:0017076 purine nucleotide binding MF
GO:0017111 ribonucleoside triphosphate phosphatase activity MF
GO:0019219 regulation of nucleobase-containing compound metabolic process BP
GO:0019222 regulation of metabolic process BP
GO:0019439 aromatic compound catabolic process BP
GO:0019538 protein metabolic process BP
GO:0030466 silent mating-type cassette heterochromatin formation BP
GO:0030554 adenyl nucleotide binding MF
GO:0031323 regulation of cellular metabolic process BP
GO:0031324 negative regulation of cellular metabolic process BP
GO:0031326 regulation of cellular biosynthetic process BP
GO:0031327 negative regulation of cellular biosynthetic process BP
GO:0031329 regulation of cellular catabolic process BP
GO:0032268 regulation of protein metabolic process BP
GO:0032446 protein modification by small protein conjugation BP
GO:0032553 ribonucleotide binding MF
GO:0032555 purine ribonucleotide binding MF
GO:0032559 adenyl ribonucleotide binding MF
GO:0032991 protein-containing complex CC
GO:0033036 macromolecule localization BP
GO:0033554 cellular response to stress BP
GO:0034248 regulation of amide metabolic process BP
GO:0034427 nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0034655 nucleobase-containing compound catabolic process BP
GO:0035639 purine ribonucleoside triphosphate binding MF
GO:0036094 small molecule binding MF
GO:0036211 protein modification process BP
GO:0040029 epigenetic regulation of gene expression BP
GO:0042623 ATP hydrolysis activity MF
GO:0043021 ribonucleoprotein complex binding MF
GO:0043024 ribosomal small subunit binding MF
GO:0043167 ion binding MF
GO:0043168 anion binding MF
GO:0043170 macromolecule metabolic process BP
GO:0043244 regulation of protein-containing complex disassembly BP
GO:0043412 macromolecule modification BP
GO:0043487 regulation of RNA stability BP
GO:0043488 regulation of mRNA stability BP
GO:0043928 exonucleolytic catabolism of deadenylated mRNA 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:0044267 protein metabolic process BP
GO:0044270 cellular nitrogen compound catabolic process BP
GO:0044424 obsolete intracellular part CC
GO:0044464 obsolete cell part CC
GO:0044877 protein-containing complex binding MF
GO:0045814 negative regulation of gene expression, epigenetic BP
GO:0045892 negative regulation of DNA-templated transcription BP
GO:0045934 negative regulation of nucleobase-containing compound metabolic process BP
GO:0046483 heterocycle metabolic process BP
GO:0046700 heterocycle catabolic process BP
GO:0048519 negative regulation of biological 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:0051179 localization BP
GO:0051246 regulation of protein metabolic process BP
GO:0051252 regulation of RNA metabolic process BP
GO:0051253 negative regulation of RNA metabolic process BP
GO:0051276 chromosome organization BP
GO:0051641 cellular localization BP
GO:0051716 cellular response to stimulus BP
GO:0060255 regulation of macromolecule metabolic process BP
GO:0061013 regulation of mRNA catabolic process BP
GO:0065007 biological regulation BP
GO:0065008 regulation of biological quality BP
GO:0070035 obsolete purine NTP-dependent helicase activity MF
GO:0070478 nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay BP
GO:0070647 protein modification by small protein conjugation or removal BP
GO:0070727 cellular macromolecule localization BP
GO:0071704 organic substance metabolic process 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:0097367 carbohydrate derivative binding MF
GO:0140098 catalytic activity, acting on RNA MF
GO:1901265 nucleoside phosphate binding MF
GO:1901360 organic cyclic compound metabolic process BP
GO:1901361 organic cyclic compound catabolic process BP
GO:1901363 heterocyclic compound binding MF
GO:1901564 organonitrogen compound metabolic process BP
GO:1901575 organic substance catabolic process BP
GO:1902679 negative regulation of RNA biosynthetic process BP
GO:1903311 regulation of mRNA metabolic process BP
GO:1903506 regulation of nucleic acid-templated transcription BP
GO:1903507 negative regulation of nucleic acid-templated transcription 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
GO:2000815 regulation of mRNA stability involved in response to oxidative stress BP
GO:2001141 regulation of RNA biosynthetic 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.
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.