Genomic Location: not available for this species
NR annotation: MBN2489496.1, polyribonucleotide nucleotidyltransferase [Planctomycetota bacterium]
Species Cassiopea xamachana · all data for this species · gene families
| UniProt accession | Description |
|---|---|
| A5GF91 | Polyribonucleotide nucleotidyltransferase OS=Geotalea uraniireducens (strain Rf4) OX=351605 GN=pnp PE=3 SV=1 |
| Q39VA1 | Polyribonucleotide nucleotidyltransferase OS=Geobacter metallireducens (strain ATCC 53774 / DSM 7210 / GS-15) OX=269799 GN=pnp PE=3 SV=1 |
| C6E2P5 | Polyribonucleotide nucleotidyltransferase OS=Geobacter sp. (strain M21) OX=443144 GN=pnp PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004219 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01138 all species → | RNase_PH | 3' exoribonuclease family, domain 1 | Domain | Interproscan |
| PF03726 all species → | PNPase | Polyribonucleotide nucleotidyltransferase, RNA binding domain | Domain | Interproscan |
| PF03725 all species → | RNase_PH_C | 3' exoribonuclease family, domain 2 | Domain | Interproscan |
| PF00013 all species → | KH_1 | KH domain | Domain | Interproscan |
| PF00575 all species → | S1 | S1 RNA binding domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR036612 all species → | Homologous_superfamily | K Homology domain, type 1 superfamily | Interproscan |
| IPR001247 all species → | Domain | Exoribonuclease, phosphorolytic domain 1 | Interproscan |
| IPR015848 all species → | Domain | Polyribonucleotide nucleotidyltransferase, RNA-binding domain | Interproscan |
| IPR004087 all species → | Domain | K Homology domain | Interproscan |
| IPR012162 all species → | Family | Polyribonucleotide nucleotidyltransferase | Interproscan |
| IPR020568 all species → | Homologous_superfamily | Ribosomal protein uS5 domain 2-type superfamily | Interproscan |
| IPR027408 all species → | Homologous_superfamily | PNPase/RNase PH domain superfamily | Interproscan |
| IPR036345 all species → | Homologous_superfamily | Exoribonuclease, PH domain 2 superfamily | Interproscan |
| IPR012340 all species → | Homologous_superfamily | Nucleic acid-binding, OB-fold | Interproscan |
| IPR015847 all species → | Domain | Exoribonuclease, phosphorolytic domain 2 | Interproscan |
| IPR003029 all species → | Domain | S1 domain | Interproscan |
| IPR004088 all species → | Domain | K Homology domain, type 1 | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11252 all species → | POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0006396 all species → | Biological Process | RNA processing | Interproscan |
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| GO:0004654 all species → | Molecular Function | polyribonucleotide nucleotidyltransferase activity | Interproscan |
| GO:0006402 all species → | Biological Process | mRNA catabolic process | Interproscan |
| GO:0000175 all species → | Molecular Function | 3'-5'-RNA exonuclease activity | Interproscan |
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0006401 all species → | Biological Process | RNA catabolic process | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K00962 | pnp, PNPT1; polyribonucleotide nucleotidyltransferase | EC:2.7.7.8 | Transfer RNA biogenesis | ko03016 | deepkoala |
Genes whose expression across the transcriptome samples of Cassiopea xamachana 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 Cassiopea xamachana, 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. | sequence table not available | – |
| 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. | sequence table not available | – |
| 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 → |
