Basic Information
Gene Structure
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Domain
| Database | EntryID | E-Value | Start | end | InterPro ID | Description |
|---|
Regulation&Interaction
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 Term | Description | GO Category |
|---|---|---|
| GO:0000462 | maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) | BP |
| GO:0003674 | molecular_function | MF |
| GO:0003724 | RNA helicase activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0004004 | RNA helicase activity | MF |
| GO:0004386 | helicase activity | MF |
| GO:0005575 | cellular_component | CC |
| GO:0005622 | intracellular anatomical structure | CC |
| GO:0005623 | obsolete cell | CC |
| GO:0005634 | nucleus | CC |
| GO:0005681 | spliceosomal complex | CC |
| GO:0005730 | nucleolus | CC |
| GO:0005737 | cytoplasm | CC |
| GO:0006139 | nucleobase-containing compound metabolic process | BP |
| GO:0006364 | rRNA processing | BP |
| GO:0006396 | RNA processing | BP |
| GO:0006725 | cellular aromatic compound metabolic process | BP |
| GO:0006807 | nitrogen compound metabolic process | BP |
| GO:0008026 | helicase activity | MF |
| GO:0008150 | biological_process | BP |
| GO:0008152 | metabolic process | BP |
| GO:0008186 | ATP-dependent activity, acting on RNA | MF |
| GO:0008380 | RNA splicing | BP |
| GO:0009987 | cellular process | BP |
| GO:0010467 | gene expression | BP |
| GO:0010468 | regulation of gene expression | BP |
| GO:0010501 | RNA secondary structure unwinding | BP |
| GO:0016070 | RNA metabolic process | BP |
| GO:0016072 | rRNA metabolic process | BP |
| GO:0016462 | pyrophosphatase activity | MF |
| 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:0017111 | ribonucleoside triphosphate phosphatase activity | MF |
| GO:0019222 | regulation of metabolic process | BP |
| GO:0022613 | ribonucleoprotein complex biogenesis | BP |
| GO:0030490 | maturation of SSU-rRNA | BP |
| GO:0031974 | membrane-enclosed lumen | CC |
| GO:0031981 | nuclear lumen | CC |
| GO:0032991 | protein-containing complex | CC |
| GO:0034470 | ncRNA processing | BP |
| GO:0034641 | cellular nitrogen compound metabolic process | BP |
| GO:0034660 | ncRNA metabolic process | BP |
| GO:0042254 | ribosome biogenesis | BP |
| GO:0042274 | ribosomal small subunit biogenesis | BP |
| GO:0042623 | ATP hydrolysis activity | MF |
| 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:0044085 | cellular component biogenesis | 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:0044446 | obsolete intracellular organelle part | CC |
| GO:0044464 | obsolete cell part | CC |
| GO:0046483 | heterocycle metabolic 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:0070035 | obsolete purine NTP-dependent helicase activity | MF |
| GO:0071013 | catalytic step 2 spliceosome | CC |
| GO:0071704 | organic substance metabolic process | BP |
| GO:0071840 | cellular component organization or biogenesis | BP |
| GO:0090304 | nucleic acid metabolic process | BP |
| GO:0097078 | FAL1-SGD1 complex | CC |
| GO:0140098 | catalytic activity, acting on RNA | MF |
| GO:1901360 | organic cyclic compound metabolic process | BP |
| GO:1902494 | catalytic complex | CC |
| GO:1990904 | ribonucleoprotein complex | CC |
| KEGG Term | Name | Description |
|---|---|---|
| map03040 | Spliceosome | After transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, the spliceosome. The standard spliceosome is made up of five small nuclear ribonucleoproteins (snRNPs), U1, U2, U4, U5, and U6 snRNPs, and several spliceosome-associated proteins (SAPs). Spliceosomes are not a simple stable complex, but a dynamic family of particles that assemble on the mRNA precursor and help fold it into a conformation that allows transesterification to proceed. Various spliceosome forms (e.g. A-, B- and C-complexes) have been identified. |
| 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. |