Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Pathway
Basic Information
Gene ID
gene-IMY05_C4920000400
View in Genome Browser
Position
JAEQKX010001104.1:13187-14684 (+)
1497bp
Gene Type
gene
Gene Description (Protein Product)
Suppressor of forked protein (Suf)
Organism
Salix suchowensis
Also AS AT1G17760

Gene Structure

upstream:
Get Sequence

Domain
Database EntryID E-Value Start end InterPro ID Description

Regulation&Interaction
Protein-protein interaction (PPI)
gene-IMY05_C5235000400 THO complex subunit
gene-IMY05_C5144001700 WD repeat-containing protein
gene-IMY05_C4930000100 Transcription initiation factor IIB

Load All Networks

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: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:0005515 protein 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:0005737 cytoplasm CC
GO:0005739 mitochondrion CC
GO:0005829 cytosol CC
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex CC
GO:0005849 mRNA cleavage factor complex CC
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0006378 mRNA polyadenylation BP
GO:0006379 mRNA cleavage BP
GO:0006396 RNA processing BP
GO:0006397 mRNA processing 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:0009607 response to biotic stimulus BP
GO:0009719 response to endogenous stimulus BP
GO:0009987 cellular process BP
GO:0010467 gene expression BP
GO:0010468 regulation of gene expression BP
GO:0016070 RNA metabolic process BP
GO:0016071 mRNA metabolic process BP
GO:0019219 regulation of nucleobase-containing compound metabolic process BP
GO:0019222 regulation of metabolic process BP
GO:0031123 RNA 3'-end processing BP
GO:0031124 mRNA 3'-end processing BP
GO:0031323 regulation of cellular metabolic process BP
GO:0031440 regulation of mRNA 3'-end processing BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032991 protein-containing complex CC
GO:0034641 cellular nitrogen compound 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:0043233 organelle lumen CC
GO:0043631 RNA polyadenylation BP
GO:0044237 cellular metabolic process BP
GO:0044238 primary metabolic 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:0044451 obsolete nucleoplasm part CC
GO:0044464 obsolete cell part CC
GO:0046483 heterocycle metabolic process BP
GO:0046982 protein heterodimerization activity MF
GO:0046983 protein dimerization activity MF
GO:0050684 regulation of mRNA processing BP
GO:0050789 regulation of biological process BP
GO:0050794 regulation of cellular process BP
GO:0050896 response to stimulus BP
GO:0051171 regulation of nitrogen compound metabolic process BP
GO:0051252 regulation of RNA metabolic process 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:0071216 cellular response to biotic stimulus BP
GO:0071495 cellular response to endogenous stimulus BP
GO:0071704 organic substance metabolic process BP
GO:0072396 response to cell cycle checkpoint signaling BP
GO:0072402 response to DNA integrity checkpoint signaling BP
GO:0072423 response to DNA damage checkpoint signaling BP
GO:0080090 regulation of primary 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:0097159 organic cyclic compound binding MF
GO:0098787 mRNA cleavage involved in mRNA processing BP
GO:0098789 pre-mRNA cleavage required for polyadenylation BP
GO:1901360 organic cyclic compound metabolic process BP
GO:1901363 heterocyclic compound binding MF
GO:1903311 regulation of mRNA 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.