Genomic Location: chr7Alt:9936137...9937620
NR annotation: XP_015758969.1, PREDICTED: probable ATP-dependent DNA helicase RecS [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families
| CDS |
| g15313.t1 |
| Transcript |
| chr7Alt.g15313.t1 |
| Protein |
| chr7Alt.g15313.t1 |
| UniProt accession | Description |
|---|---|
| P0CT33 | ATP-dependent DNA helicase tlh1 (Fragment) OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=tlh1 PE=3 SV=1 |
| Q1RKN3 | ATP-dependent DNA helicase tlh2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=tlh2 PE=2 SV=1 |
| Q9Z129 | ATP-dependent DNA helicase Q1 OS=Mus musculus OX=10090 GN=Recql PE=1 SV=2 |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00271 all species → | Helicase_C | Helicase conserved C-terminal domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001650 all species → | Domain | Helicase, C-terminal domain-like | Interproscan |
| IPR027417 all species → | Homologous_superfamily | P-loop containing nucleoside triphosphate hydrolase | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR13710 all species → | DNA HELICASE RECQ FAMILY MEMBER | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000724 all species → | Biological Process | double-strand break repair via homologous recombination | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0005694 all species → | Cellular Component | chromosome | Interproscan |
| GO:0005737 all species → | Cellular Component | cytoplasm | Interproscan |
| GO:0006268 all species → | Biological Process | DNA unwinding involved in DNA replication | Interproscan |
| GO:0006281 all species → | Biological Process | DNA repair | Interproscan |
| GO:0006310 all species → | Biological Process | DNA recombination | Interproscan |
| GO:0009378 all species → | Molecular Function | four-way junction helicase activity | Interproscan |
| GO:0032508 all species → | Biological Process | DNA duplex unwinding | Interproscan |
| GO:0043138 all species → | Molecular Function | 3'-5' DNA helicase activity | Interproscan |
g15313.t1.Transcript abundance of g15313.t1 across 39 RNA-seq samples of Acropora digitifera. 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 |
|---|---|---|---|---|---|
| Coral branch | 39 | 19 | 1.33 | 7.29 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR23047209 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 7.29 |
| SRR23047233 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 4.35 |
| SRR23047211 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 4.16 |
| SRR23047242 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 4.11 |
| SRR23047223 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 4.08 |
| SRR23047239 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 3.86 |
| SRR23047213 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 3.61 |
| SRR23047226 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 3.57 |
| SRR23047229 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 3.24 |
| SRR23047216 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.79 |
| SRR23047241 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.95 |
| SRR23047238 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.75 |
| SRR23047228 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.61 |
| SRR23047231 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.40 |
| SRR23047215 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.20 |
| SRR23047225 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.12 |
| SRR23047212 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.98 |
| SRR23047237 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.44 |
| SRR23047244 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.41 |
| SRR23047206 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047207 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047208 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047210 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047214 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047217 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047218 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047219 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047220 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047221 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047222 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047224 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047227 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047230 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047232 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047234 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047235 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047236 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047240 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047243 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM,
StringTie quantification over 39 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 Acropora digitifera 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 | 31 | g20155.t1 | 0.988025114750429 |
| Negatively correlated | 22 | g5966.t1 | -0.77924089496907 |
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 Acropora digitifera, 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.
| Assay | Sample | Peaks | Region |
|---|
No called peak overlaps this gene in 1 available assay. Either the gene is not near an accessible or marked region in those samples, or it is not represented in the peak caller’s annotation.
Browse the full epigenomic landscape of this species: DNase-seq (DHS).
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 → |
