Basic Information
Gene Structure
Domain
Regulation&
Interaction
Annotation
Orthologus Group
Pathway
Basic Information
Gene ID
SESE_110047.g
View in Genome Browser
Position
Scaffold_122518:9444-26064 (-)
16620bp
Gene Type
gene
Gene Description (Protein Product)
WD40 repeats
Organism
Sequoia sempervirens
Also AS AT5G13480

Gene Structure

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

Regulation&Interaction
Protein-protein interaction (PPI)
SESE_117460.g Cleavage and polyadenylation specificity factor
SESE_123943.g Cleavage and polyadenylation specificity factor
SESE_118960.g Cleavage and polyadenylation specificity factor
Regulatory gene
SESE_001250.g NAC domain-containing protein
SESE_001495.g B3 domain-containing protein
SESE_007476.g dof zinc finger protein

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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:0000003 reproduction BP
GO:0000375 RNA splicing, via transesterification reactions BP
GO:0000377 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile BP
GO:0000398 mRNA splicing, via spliceosome BP
GO:0001650 fibrillar center CC
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: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:0006259 DNA metabolic process BP
GO:0006281 DNA repair BP
GO:0006301 postreplication repair BP
GO:0006351 DNA-templated transcription BP
GO:0006353 DNA-templated transcription termination BP
GO:0006366 transcription by RNA polymerase II BP
GO:0006369 termination of RNA polymerase II transcription BP
GO:0006378 mRNA polyadenylation BP
GO:0006379 mRNA cleavage BP
GO:0006396 RNA processing BP
GO:0006397 mRNA processing BP
GO:0006403 RNA localization BP
GO:0006405 RNA export from nucleus BP
GO:0006406 mRNA export from nucleus BP
GO:0006611 protein export from nucleus BP
GO:0006725 cellular aromatic compound metabolic process BP
GO:0006807 nitrogen compound metabolic process BP
GO:0006810 transport BP
GO:0006886 intracellular protein transport BP
GO:0006913 nucleocytoplasmic transport BP
GO:0006950 response to stress BP
GO:0006974 cellular response to DNA damage stimulus BP
GO:0007276 gamete generation BP
GO:0007283 spermatogenesis BP
GO:0008104 protein localization BP
GO:0008150 biological_process BP
GO:0008152 metabolic process BP
GO:0008380 RNA splicing BP
GO:0009058 biosynthetic process BP
GO:0009059 macromolecule biosynthetic process BP
GO:0009987 cellular process BP
GO:0010467 gene expression BP
GO:0015031 protein transport BP
GO:0015833 peptide transport BP
GO:0015931 nucleobase-containing compound transport BP
GO:0016070 RNA metabolic process BP
GO:0016071 mRNA metabolic process BP
GO:0016604 nuclear body CC
GO:0016607 nuclear speck CC
GO:0018130 heterocycle biosynthetic process BP
GO:0019438 aromatic compound biosynthetic process BP
GO:0019953 sexual reproduction BP
GO:0022414 reproductive process BP
GO:0031123 RNA 3'-end processing BP
GO:0031124 mRNA 3'-end processing BP
GO:0031503 protein-containing complex localization BP
GO:0031974 membrane-enclosed lumen CC
GO:0031981 nuclear lumen CC
GO:0032501 multicellular organismal process BP
GO:0032504 multicellular organism reproduction BP
GO:0032774 RNA biosynthetic process BP
GO:0032991 protein-containing complex CC
GO:0033036 macromolecule localization BP
GO:0033554 cellular response to stress BP
GO:0034613 protein localization BP
GO:0034641 cellular nitrogen compound metabolic process BP
GO:0034645 cellular macromolecule biosynthetic process BP
GO:0034654 nucleobase-containing compound biosynthetic process BP
GO:0042886 amide transport 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:0043631 RNA polyadenylation 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: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:0044446 obsolete intracellular organelle part CC
GO:0044451 obsolete nucleoplasm part CC
GO:0044452 obsolete nucleolar part CC
GO:0044464 obsolete cell part CC
GO:0044703 multi-organism reproductive process BP
GO:0045184 establishment of protein localization BP
GO:0046483 heterocycle metabolic process BP
GO:0046907 intracellular transport BP
GO:0048232 male gamete generation BP
GO:0048609 multicellular organismal reproductive process BP
GO:0050657 nucleic acid transport BP
GO:0050658 RNA transport BP
GO:0050896 response to stimulus BP
GO:0051028 mRNA transport BP
GO:0051168 nuclear export BP
GO:0051169 nuclear transport BP
GO:0051179 localization BP
GO:0051234 establishment of localization BP
GO:0051236 establishment of RNA localization BP
GO:0051641 cellular localization BP
GO:0051649 establishment of localization in cell BP
GO:0051704 obsolete multi-organism process BP
GO:0051716 cellular response to stimulus BP
GO:0070013 intracellular organelle lumen CC
GO:0070727 cellular macromolecule localization BP
GO:0071166 ribonucleoprotein complex localization BP
GO:0071426 obsolete ribonucleoprotein complex export from nucleus BP
GO:0071427 obsolete mRNA-containing ribonucleoprotein complex export from nucleus BP
GO:0071702 organic substance transport BP
GO:0071704 organic substance metabolic process BP
GO:0071705 nitrogen compound transport BP
GO:0090304 nucleic acid metabolic process BP
GO:0090305 nucleic acid phosphodiester bond hydrolysis BP
GO:0090501 RNA phosphodiester bond hydrolysis BP
GO:0097659 nucleic acid-templated transcription BP
GO:1901360 organic cyclic compound metabolic process BP
GO:1901362 organic cyclic compound biosynthetic process BP
GO:1901576 organic substance 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.