Genomic Location: not available for this species
NR annotation: MBN2491160.1, DNA-directed RNA polymerase subunit beta' [Planctomycetota bacterium]
Species Cassiopea xamachana · all data for this species · gene families
| UniProt accession | Description |
|---|---|
| Q7URW4 | DNA-directed RNA polymerase subunit beta' OS=Rhodopirellula baltica (strain DSM 10527 / NCIMB 13988 / SH1) OX=243090 GN=rpoC PE=3 SV=1 |
| B3E164 | DNA-directed RNA polymerase subunit beta' OS=Methylacidiphilum infernorum (isolate V4) OX=481448 GN=rpoC PE=3 SV=1 |
| B2UQY1 | DNA-directed RNA polymerase subunit beta' OS=Akkermansia muciniphila (strain ATCC BAA-835 / DSM 22959 / JCM 33894 / BCRC 81048 / CCUG 64013 / CIP 107961 / Muc) OX=349741 GN=rpoC PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0010589 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF04998 all species → | RNA_pol_Rpb1_5 | RNA polymerase Rpb1, domain 5 | Domain | Interproscan |
| PF04997 all species → | RNA_pol_Rpb1_1 | RNA polymerase Rpb1, domain 1 | Domain | Interproscan |
| PF04983 all species → | RNA_pol_Rpb1_3 | RNA polymerase Rpb1, domain 3 | Domain | Interproscan |
| PF00623 all species → | RNA_pol_Rpb1_2 | RNA polymerase Rpb1, domain 2 | Domain | Interproscan |
| PF05000 all species → | RNA_pol_Rpb1_4 | RNA polymerase Rpb1, domain 4 | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR007081 all species → | Domain | RNA polymerase Rpb1, domain 5 | Interproscan |
| IPR007080 all species → | Domain | RNA polymerase Rpb1, domain 1 | Interproscan |
| IPR007066 all species → | Domain | RNA polymerase Rpb1, domain 3 | Interproscan |
| IPR038120 all species → | Homologous_superfamily | RNA polymerase Rpb1, funnel domain superfamily | Interproscan |
| IPR042102 all species → | Homologous_superfamily | RNA polymerase Rpb1, domain 3 superfamily | Interproscan |
| IPR000722 all species → | Domain | RNA polymerase, alpha subunit | Interproscan |
| IPR007083 all species → | Domain | RNA polymerase Rpb1, domain 4 | Interproscan |
| IPR012754 all species → | Family | DNA-directed RNA polymerase, subunit beta-prime, bacterial type | Interproscan |
| IPR045867 all species → | Family | DNA-directed RNA polymerase, subunit beta-prime | Interproscan |
| IPR044893 all species → | Homologous_superfamily | RNA polymerase Rpb1, clamp domain superfamily | Interproscan |
| IPR006592 all species → | Domain | RNA polymerase, N-terminal | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR19376 all species → | DNA-DIRECTED RNA POLYMERASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0003899 all species → | Molecular Function | DNA-directed 5'-3' RNA polymerase activity | Interproscan |
| GO:0006351 all species → | Biological Process | DNA-templated transcription | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03046 | rpoC; DNA-directed RNA polymerase subunit beta' | EC:2.7.7.6 | DNA repair and recombination proteins | ko03400 | 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 → |
