Genomic Location: chr1:1685094...1700485
NR annotation: RMX44133.1, hypothetical protein pdam_00002483 [Pocillopora damicornis]
Species Oculina arbuscula · all data for this species · gene families
| CDS |
| ENSPTBT00000001136 |
| Transcript |
| ENSPTBT00000001136 |
| Protein |
| ENSPTBP00000001136.1 |
| UniProt accession | Description |
|---|---|
| P11387 | DNA topoisomerase 1 OS=Homo sapiens OX=9606 GN=TOP1 PE=1 SV=2 |
| Q7YR26 | DNA topoisomerase 1 OS=Chlorocebus aethiops OX=9534 GN=TOP1 PE=2 SV=1 |
| Q9WUL0 | DNA topoisomerase 1 OS=Rattus norvegicus OX=10116 GN=Top1 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004961 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF14370 all species → | Topo_C_assoc | C-terminal topoisomerase domain | Family | Interproscan |
| PF02919 all species → | Topoisom_I_N | Eukaryotic DNA topoisomerase I, DNA binding fragment | Family | Interproscan |
| PF01028 all species → | Topoisom_I | Eukaryotic DNA topoisomerase I, catalytic core | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR025834 all species → | Domain | Topoisomerase I C-terminal domain | Interproscan |
| IPR051062 all species → | Family | DNA topoisomerase IB | Interproscan |
| IPR014727 all species → | Homologous_superfamily | DNA topoisomerase I, catalytic core, alpha/beta subdomain | Interproscan |
| IPR036202 all species → | Homologous_superfamily | DNA topoisomerase I, DNA binding, eukaryotic-type, N-terminal domain superfamily | Interproscan |
| IPR001631 all species → | Family | DNA topoisomerase I | Interproscan |
| IPR013499 all species → | Domain | DNA topoisomerase I, eukaryotic-type | Interproscan |
| IPR013030 all species → | Homologous_superfamily | DNA topoisomerase I, DNA binding, N-terminal domain 2 | Interproscan |
| IPR013500 all species → | Domain | DNA topoisomerase I, catalytic core, eukaryotic-type | Interproscan |
| IPR014711 all species → | Homologous_superfamily | DNA topoisomerase I, catalytic core, alpha-helical subdomain, eukaryotic-type | Interproscan |
| IPR013034 all species → | Homologous_superfamily | DNA topoisomerase I, DNA binding, N-terminal domain 1 | Interproscan |
| IPR008336 all species → | Domain | DNA topoisomerase I, DNA binding, eukaryotic-type | Interproscan |
| IPR018521 all species → | Active_site | DNA topoisomerase I, active site | Interproscan |
| IPR011010 all species → | Homologous_superfamily | DNA breaking-rejoining enzyme, catalytic core | Interproscan |
| IPR048045 all species → | Domain | DNA topoisomerase I, DNA-binding domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10290 all species → | DNA TOPOISOMERASE I | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003917 all species → | Molecular Function | DNA topoisomerase type I (single strand cut, ATP-independent) activity | Interproscan |
| GO:0005730 all species → | Cellular Component | nucleolus | Interproscan |
| GO:0006260 all species → | Biological Process | DNA replication | Interproscan |
| GO:0006265 all species → | Biological Process | DNA topological change | Interproscan |
| GO:0007059 all species → | Biological Process | chromosome segregation | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0005694 all species → | Cellular Component | chromosome | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03163 | TOP1; DNA topoisomerase I | EC:5.6.2.1 | DNA replication proteins | ko03032 | deepkoala |
Genes whose expression across the transcriptome samples of Oculina arbuscula 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 Oculina arbuscula, 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 → |
