Genomic Location: BLFP01005150.1:180199...183157
NR annotation: CAH3171816.1, unnamed protein product [Porites evermanni]
Species Montipora efflorescens · all data for this species · gene families
| CDS |
| ENSTIFT00000050236 |
| Transcript |
| ENSTIFT00000050236 |
| Protein |
| ENSTIFP00000046679.1 |
| UniProt accession | Description |
|---|---|
| Q7KWX9 | Putative exosome complex component rrp40 OS=Dictyostelium discoideum OX=44689 GN=exosc3 PE=3 SV=1 |
| Q9NQT5 | Exosome complex component RRP40 OS=Homo sapiens OX=9606 GN=EXOSC3 PE=1 SV=3 |
| Q7TQK4 | Exosome complex component RRP40 OS=Mus musculus OX=10090 GN=Exosc3 PE=1 SV=3 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006678 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF15985 all species → | KH_6 | KH domain | Domain | Interproscan |
| PF18311 all species → | Rrp40_N | Exosome complex exonuclease Rrp40 N-terminal domain | Domain | Interproscan |
| PF21262 all species → | RRP40_S1 | Exosome complex component RRP40, S1 domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR004088 all species → | Domain | K Homology domain, type 1 | Interproscan |
| IPR041054 all species → | Domain | Exosome complex exonuclease Rrp40, N-terminal domain, eukaryotes | Interproscan |
| IPR037319 all species → | Domain | Rrp40, S1 domain | Interproscan |
| IPR012340 all species → | Homologous_superfamily | Nucleic acid-binding, OB-fold | Interproscan |
| IPR036612 all species → | Homologous_superfamily | K Homology domain, type 1 superfamily | Interproscan |
| IPR026699 all species → | Family | Exosome complex RNA-binding protein 1/RRP40/RRP4 | Interproscan |
| IPR049469 all species → | Domain | Exosome complex component RRP40, type I KH domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR21321 all species → | PNAS-3 RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0000176 all species → | Cellular Component | nuclear exosome (RNase complex) | Interproscan |
| GO:0000177 all species → | Cellular Component | cytoplasmic exosome (RNase complex) | Interproscan |
| GO:0000178 all species → | Cellular Component | exosome (RNase complex) | Interproscan |
| GO:0000467 all species → | Biological Process | exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) | Interproscan |
| GO:0034427 all species → | Biological Process | obsolete nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' | Interproscan |
| GO:0034475 all species → | Biological Process | U4 snRNA 3'-end processing | Interproscan |
| GO:0043928 all species → | Biological Process | obsolete exonucleolytic catabolism of deadenylated mRNA | Interproscan |
| GO:0071034 all species → | Biological Process | CUT catabolic process | Interproscan |
| GO:0071035 all species → | Biological Process | nuclear polyadenylation-dependent rRNA catabolic process | Interproscan |
| GO:0071038 all species → | Biological Process | TRAMP-dependent tRNA surveillance pathway | Interproscan |
| GO:0071051 all species → | Biological Process | poly(A)-dependent snoRNA 3'-end processing | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03681 | RRP40, EXOSC3; exosome complex component RRP40 | - | Messenger RNA biogenesis | ko03019 | deepkoala |
Genes whose expression across the transcriptome samples of Montipora efflorescens tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.
No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.
Whether this gene can be visualised in the single-cell atlases of Montipora efflorescens, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.
No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.
Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.
No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.
Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.
| Analysis | What it does | Status | |
|---|---|---|---|
| Primer design | Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed. | template found | open → |
| BLAST | Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start. | template found | open → |
| Expression heatmap | Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it. | no expression matrix | – |
| Gene family / orthogroup | Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue. | open → | |
| Gene set analysis | Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it. | open → |
