Genomic Location: chr10:3972545...3998331
NR annotation: XP_031560236.1, poly(A)-specific ribonuclease PNLDC1-like [Actinia tenebrosa]
Species Catostylus mosaicus · all data for this species · gene families
| CDS |
| ENSSJYT00000005118 |
| Transcript |
| ENSSJYT00000005118 |
| Protein |
| ENSSJYP00000004954.1 |
| UniProt accession | Description |
|---|---|
| H9JAQ7 | Pre-piRNA 3'-exonuclease trimmer OS=Bombyx mori OX=7091 GN=PNLDC1 PE=1 SV=2 |
| Q5R6R6 | Poly(A)-specific ribonuclease PNLDC1 OS=Pongo abelii OX=9601 GN=PNLDC1 PE=2 SV=1 |
| B2RXZ1 | Poly(A)-specific ribonuclease PNLDC1 OS=Mus musculus OX=10090 GN=Pnldc1 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0001821 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF04857 all species → | CAF1 | CAF1 family ribonuclease | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR051181 all species → | Family | CAF1 family poly(A)-specific ribonucleases | Interproscan |
| IPR006941 all species → | Family | Ribonuclease CAF1 | Interproscan |
| IPR012337 all species → | Homologous_superfamily | Ribonuclease H-like superfamily | Interproscan |
| IPR036397 all species → | Homologous_superfamily | Ribonuclease H superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR15092 all species → | POLY A -SPECIFIC RIBONUCLEASE/TARGET OF EGR1, MEMBER 1 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000175 all species → | Molecular Function | 3'-5'-RNA exonuclease activity | Interproscan |
| GO:0000289 all species → | Biological Process | nuclear-transcribed mRNA poly(A) tail shortening | Interproscan |
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0004535 all species → | Molecular Function | poly(A)-specific ribonuclease activity | Interproscan |
| GO:0005737 all species → | Cellular Component | cytoplasm | Interproscan |
| GO:0005783 all species → | Cellular Component | endoplasmic reticulum | Interproscan |
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K01148 | PARN, PNLDC1; poly(A)-specific ribonuclease | EC:3.1.13.4 | Messenger RNA biogenesis | ko03019 | deepkoala |
Genes whose expression across the transcriptome samples of Catostylus mosaicus 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 Catostylus mosaicus, 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 → |
