Genomic Location: not available for this species
NR annotation: XP_020613490.1, DNA-directed RNA polymerase II subunit RPB3-like [Orbicella faveolata]
Species Palythoa mizigama · all data for this species · gene families
c0886.g006.t1.p1 in PMIZI (the gene ID may belong to a different isoform naming scheme). Try the gene search.| UniProt accession | Description |
|---|---|
| P97760 | DNA-directed RNA polymerase II subunit RPB3 OS=Mus musculus OX=10090 GN=Polr2c PE=1 SV=2 |
| Q3T0Q3 | DNA-directed RNA polymerase II subunit RPB3 OS=Bos taurus OX=9913 GN=POLR2C PE=1 SV=1 |
| P19387 | DNA-directed RNA polymerase II subunit RPB3 OS=Homo sapiens OX=9606 GN=POLR2C PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0007702 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01000 all species → | RNA_pol_A_bac | RNA polymerase Rpb3/RpoA insert domain | Domain | Interproscan |
| PF01193 all species → | RNA_pol_L | RNA polymerase Rpb3/Rpb11 dimerisation domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR011262 all species → | Domain | DNA-directed RNA polymerase, insert domain | Interproscan |
| IPR036603 all species → | Homologous_superfamily | RNA polymerase, RBP11-like subunit | Interproscan |
| IPR011263 all species → | Domain | DNA-directed RNA polymerase, RpoA/D/Rpb3-type | Interproscan |
| IPR022842 all species → | Family | DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1 | Interproscan |
| IPR050518 all species → | Family | Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase Subunit | Interproscan |
| IPR001514 all species → | Conserved_site | DNA-directed RNA polymerase, 30-40kDa subunit, conserved site | Interproscan |
| IPR036643 all species → | Homologous_superfamily | DNA-directed RNA polymerase, insert domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11800 all species → | DNA-DIRECTED RNA POLYMERASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003899 all species → | Molecular Function | DNA-directed 5'-3' RNA polymerase activity | Interproscan |
| GO:0006351 all species → | Biological Process | DNA-templated transcription | Interproscan |
| GO:0046983 all species → | Molecular Function | protein dimerization activity | Interproscan |
| GO:0001055 all species → | Molecular Function | RNA polymerase II activity | Interproscan |
| GO:0005665 all species → | Cellular Component | RNA polymerase II, core complex | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03011 | RPB3, POLR2C; DNA-directed RNA polymerase II subunit RPB3 | - | DNA repair and recombination proteins | ko03400 | deepkoala |
Genes whose expression across the transcriptome samples of Palythoa mizigama 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 Palythoa mizigama, 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. | not in the sequence table | 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. | not in the sequence table | 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 → |
