Genomic Location: chr3:26732965...26787830
NR annotation: no NCBI-NR hit recorded
Species Callogorgia gracilis · all data for this species · gene families
| CDS |
| ENSFVQT00000020319 |
| Transcript |
| ENSFVQT00000020319 |
| Protein |
| ENSFVQP00000018052.1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0002930 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF04983 all species → | RNA_pol_Rpb1_3 | RNA polymerase Rpb1, domain 3 | Domain | Interproscan |
| 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 |
| PF05000 all species → | RNA_pol_Rpb1_4 | RNA polymerase Rpb1, domain 4 | Domain | Interproscan |
| PF00623 all species → | RNA_pol_Rpb1_2 | RNA polymerase Rpb1, domain 2 | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR007066 all species → | Domain | RNA polymerase Rpb1, domain 3 | Interproscan |
| IPR006592 all species → | Domain | RNA polymerase, N-terminal | Interproscan |
| IPR038120 all species → | Homologous_superfamily | RNA polymerase Rpb1, funnel domain superfamily | Interproscan |
| IPR047107 all species → | Domain | DNA-directed RNA pol I, largest subunit, C-terminal domain | Interproscan |
| IPR007081 all species → | Domain | RNA polymerase Rpb1, domain 5 | Interproscan |
| IPR007080 all species → | Domain | RNA polymerase Rpb1, domain 1 | Interproscan |
| IPR042102 all species → | Homologous_superfamily | RNA polymerase Rpb1, domain 3 superfamily | Interproscan |
| IPR015699 all species → | Domain | DNA-directed RNA pol I, largest subunit, N-terminal domain | Interproscan |
| IPR007083 all species → | Domain | RNA polymerase Rpb1, domain 4 | Interproscan |
| IPR045867 all species → | Family | DNA-directed RNA polymerase, subunit beta-prime | Interproscan |
| IPR000722 all species → | Domain | RNA polymerase, alpha subunit | Interproscan |
| IPR044893 all species → | Homologous_superfamily | RNA polymerase Rpb1, clamp domain superfamily | 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 |
| GO:0001054 all species → | Molecular Function | RNA polymerase I activity | Interproscan |
| GO:0005736 all species → | Cellular Component | RNA polymerase I complex | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K02999 | RPA1, POLR1A; DNA-directed RNA polymerase I subunit RPA1 | EC:2.7.7.6 | Transcription machinery | ko03021 | deepkoala |
Genes whose expression across the transcriptome samples of Callogorgia gracilis 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 Callogorgia gracilis, 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 → |
