Genomic Location: chr12:33754876...33771916
NR annotation: XP_029197428.2, DNA-directed RNA polymerases I and III subunit RPAC1-like isoform X1 [Acropora millepora]
Species Montipora foliosa · all data for this species · gene families
| CDS |
| LOC137980539 |
| Transcript |
| rna-XM_068827997.1 |
| Protein |
| XP_068684098.1 |
| UniProt accession | Description |
|---|---|
| O15160 | DNA-directed RNA polymerases I and III subunit RPAC1 OS=Homo sapiens OX=9606 GN=POLR1C PE=1 SV=1 |
| P52432 | DNA-directed RNA polymerases I and III subunit RPAC1 OS=Mus musculus OX=10090 GN=Polr1c PE=1 SV=3 |
| Q32L22 | DNA-directed RNA polymerases I and III subunit RPAC1 OS=Bos taurus OX=9913 GN=POLR1C PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004554 (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 |
|---|---|---|---|
| IPR022842 all species → | Family | DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1 | Interproscan |
| IPR011263 all species → | Domain | DNA-directed RNA polymerase, RpoA/D/Rpb3-type | Interproscan |
| IPR033901 all species → | Family | DNA-directed RNA polymerases I and III subunit AC40 | Interproscan |
| IPR036643 all species → | Homologous_superfamily | DNA-directed RNA polymerase, insert domain superfamily | Interproscan |
| IPR001514 all species → | Conserved_site | DNA-directed RNA polymerase, 30-40kDa subunit, conserved site | Interproscan |
| IPR011262 all species → | Domain | DNA-directed RNA polymerase, insert domain | Interproscan |
| IPR036603 all species → | Homologous_superfamily | RNA polymerase, RBP11-like subunit | Interproscan |
| IPR050518 all species → | Family | Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase Subunit | 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:0001054 all species → | Molecular Function | RNA polymerase I activity | Interproscan |
| GO:0001056 all species → | Molecular Function | RNA polymerase III activity | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0046983 all species → | Molecular Function | protein dimerization activity | Interproscan |
| GO:0005666 all species → | Cellular Component | RNA polymerase III complex | Interproscan |
| GO:0005736 all species → | Cellular Component | RNA polymerase I complex | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03027 | RPAC1, RPC40, POLR1C; DNA-directed RNA polymerases I and III subunit RPAC1 | - | Transcription machinery | ko03021 | deepkoala |
Transcript abundance of XP_068684098.1 across 36 RNA-seq samples of Montipora foliosa. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| Polyps | 36 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR12710845 | Polyps | Polyps | OA4 day3 | not recorded | SRP199550 | 0.00 |
| SRR12710852 | Polyps | Polyps | OA4 day9 | not recorded | SRP199550 | 0.00 |
| SRR12710853 | Polyps | Polyps | OA4 day9 | not recorded | SRP199550 | 0.00 |
| SRR12710854 | Polyps | Polyps | OA4 day9 | not recorded | SRP199550 | 0.00 |
| SRR12710865 | Polyps | Polyps | OA4 day3 | not recorded | SRP199550 | 0.00 |
| SRR12710866 | Polyps | Polyps | OA4 day3 | not recorded | SRP199550 | 0.00 |
| SRR12786895 | Polyps | Polyps | OA4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12786903 | Polyps | Polyps | OA4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12786904 | Polyps | Polyps | OA4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12807380 | Polyps | Polyps | OA4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12849112 | Polyps | Polyps | OA4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12904780 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR12904791 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR12904792 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR12927879 | Polyps | Polyps | E4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12959181 | Polyps | Polyps | E4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12959185 | Polyps | Polyps | E4 day21 | not recorded | SRP199550 | 0.00 |
| SRR12959186 | Polyps | Polyps | E4 day21 | not recorded | SRP199550 | 0.00 |
| SRR12959187 | Polyps | Polyps | E4 day21 | not recorded | SRP199550 | 0.00 |
| SRR12959198 | Polyps | Polyps | E4 day15 | not recorded | SRP199550 | 0.00 |
| SRR12959199 | Polyps | Polyps | E4 day15 | not recorded | SRP199550 | 0.00 |
| SRR12959200 | Polyps | Polyps | E4 day15 | not recorded | SRP199550 | 0.00 |
| SRR12959211 | Polyps | Polyps | E4 day9 | not recorded | SRP199550 | 0.00 |
| SRR12959212 | Polyps | Polyps | E4 day9 | not recorded | SRP199550 | 0.00 |
| SRR12959213 | Polyps | Polyps | E4 day9 | not recorded | SRP199550 | 0.00 |
| SRR12959224 | Polyps | Polyps | E4 day3 | not recorded | SRP199550 | 0.00 |
| SRR12959225 | Polyps | Polyps | E4 day3 | not recorded | SRP199550 | 0.00 |
| SRR12959226 | Polyps | Polyps | E4 day3 | not recorded | SRP199550 | 0.00 |
| SRR12959237 | Polyps | Polyps | E4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12959238 | Polyps | Polyps | E4 day0 | not recorded | SRP199550 | 0.00 |
| SRR12963483 | Polyps | Polyps | E4 day0 | not recorded | SRP199550 | 0.00 |
| SRR27940177 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940179 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940180 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR9129315 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR9613518 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (MFOLI_TPM,
StringTie quantification over 36 runs), joined to SRA sample
metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped
by the descriptor carried in the expression matrix itself.
Genes whose expression across the transcriptome samples of Montipora foliosa 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.
| Direction | Partners | Most correlated partner | PCC |
|---|---|---|---|
| Positively correlated | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Montipora foliosa network, in either direction — it is not one of the genes the network was built from (the network covers genes with enough expression variation across the transcriptome samples). The counts above are a property of the network, not a failed lookup.
Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.
Whether this gene can be visualised in the single-cell atlases of Montipora foliosa, 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 → |
