Genomic Location: JASJOG010000070.1:427972...456448
NR annotation: XP_028412124.1, DNA polymerase delta catalytic subunit-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families
| CDS |
| ENSBQFT00000025541 |
| Protein |
| ENSBQFP00000022870.1 |
| UniProt accession | Description |
|---|---|
| O54747 | DNA polymerase delta catalytic subunit OS=Rattus norvegicus OX=10116 GN=Pold1 PE=2 SV=1 |
| P52431 | DNA polymerase delta catalytic subunit OS=Mus musculus OX=10090 GN=Pold1 PE=1 SV=2 |
| P97283 | DNA polymerase delta catalytic subunit OS=Mesocricetus auratus OX=10036 GN=POLD1 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0003830 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF14260 all species → | zf-C4pol | C4-type zinc-finger of DNA polymerase delta | Domain | Interproscan |
| PF03104 all species → | DNA_pol_B_exo1 | DNA polymerase family B, exonuclease domain | Family | Interproscan |
| PF00136 all species → | DNA_pol_B | DNA polymerase family B | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR043502 all species → | Homologous_superfamily | DNA/RNA polymerase superfamily | Interproscan |
| IPR006172 all species → | Family | DNA-directed DNA polymerase, family B | Interproscan |
| IPR042087 all species → | Homologous_superfamily | DNA polymerase family B, thumb domain | Interproscan |
| IPR025687 all species → | Domain | C4-type zinc-finger of DNA polymerase delta | Interproscan |
| IPR006133 all species → | Domain | DNA-directed DNA polymerase, family B, exonuclease domain | Interproscan |
| IPR006134 all species → | Domain | DNA-directed DNA polymerase, family B, multifunctional domain | Interproscan |
| IPR036397 all species → | Homologous_superfamily | Ribonuclease H superfamily | Interproscan |
| IPR023211 all species → | Homologous_superfamily | DNA polymerase, palm domain superfamily | Interproscan |
| IPR050240 all species → | Family | DNA polymerase type-B | Interproscan |
| IPR017964 all species → | Conserved_site | DNA-directed DNA polymerase, family B, conserved site | Interproscan |
| IPR012337 all species → | Homologous_superfamily | Ribonuclease H-like superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10322 all species → | DNA POLYMERASE CATALYTIC SUBUNIT | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000166 all species → | Molecular Function | nucleotide binding | Interproscan |
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| GO:0003887 all species → | Molecular Function | DNA-directed DNA polymerase activity | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0006261 all species → | Biological Process | DNA-templated DNA replication | Interproscan |
| GO:0006287 all species → | Biological Process | base-excision repair, gap-filling | Interproscan |
| GO:0006297 all species → | Biological Process | nucleotide-excision repair, DNA gap filling | Interproscan |
| GO:0008296 all species → | Molecular Function | 3'-5'-DNA exonuclease activity | Interproscan |
| GO:0043625 all species → | Cellular Component | delta DNA polymerase complex | Interproscan |
| GO:0045004 all species → | Biological Process | DNA replication proofreading | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K02327 | POLD1; DNA polymerase delta subunit 1 | EC:2.7.7.7 | DNA repair and recombination proteins | ko03400 | deepkoala |
Transcript abundance of ENSBQFP00000022870.1 across 37 RNA-seq samples of Heliopora coerulea. 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 |
|---|---|---|---|---|---|
| Whole coral | 17 | 11 | 3.12 | 12.79 | |
| polyp and skeleton · 31C, 3week | 6 | 6 | 7.49 | 13.86 | |
| polyp and skeleton · 28C, 3week | 6 | 4 | 4.22 | 9.11 | |
| polyp and skeleton · 26C, 3week | 4 | 2 | 2.52 | 5.63 | |
| polyp and skeleton · 28C, 24hr | 2 | 2 | 4.67 | 5.49 | |
| polyp and skeleton · 31C, 24hr | 2 | 1 | 3.91 | 7.82 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| ERR6178777 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 12.79 |
| ERR6178773 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 5.65 |
| ERR6178770 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.34 |
| ERR6178776 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.24 |
| ERR6178389 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.23 |
| ERR6178781 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 4.06 |
| ERR6178778 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.96 |
| ERR6178780 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.79 |
| ERR6178779 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.71 |
| ERR6178783 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 3.34 |
| ERR6178774 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 2.85 |
| ERR6178387 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178388 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178771 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178772 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178775 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178782 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| SRR12578068 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 13.86 |
| SRR12578066 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 10.62 |
| SRR12578065 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 7.86 |
| SRR12587804 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 6.03 |
| SRR12587800 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 3.99 |
| SRR12587799 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 2.57 |
| SRR12587802 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 9.11 |
| SRR12587807 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 6.00 |
| SRR12587803 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 5.89 |
| SRR12587808 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 4.31 |
| SRR12578067 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR5949849 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR12587798 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 5.63 |
| SRR12587805 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 4.45 |
| SRR12587801 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 0.00 |
| SRR12587806 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 0.00 |
| SRR12578063 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 5.49 |
| SRR5949850 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 3.86 |
| SRR12578064 | polyp and skeleton · 31C, 24hr | polyp and skeleton | not recorded | 31C, 24hr | SRP115860 | 7.82 |
| SRR5949848 | polyp and skeleton · 31C, 24hr | polyp and skeleton | not recorded | 31C, 24hr | SRP115860 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (HCOER_TPM,
StringTie quantification over 37 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 Heliopora coerulea 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 | 12 | ENSBQFP00000027621 | 0.837558220826247 |
| Negatively correlated | 5 | ENSBQFP00000004418 | -0.685828970901878 |
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. Partner counts were matched on ENSBQFP00000022870, the spelling this network uses.
Whether this gene can be visualised in the single-cell atlases of Heliopora coerulea, 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. | ready | open → |
| 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 → |
