Genomic Location: chr7Alt:28491138...28497107
NR annotation: XP_015780454.1, PREDICTED: retinol dehydrogenase 8-like isoform X1 [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families
| CDS |
| g16375.t2 |
| Transcript |
| chr7Alt.g16375.t2 |
| Protein |
| chr7Alt.g16375.t2 |
| UniProt accession | Description |
|---|---|
| Q9N126 | Retinol dehydrogenase 8 OS=Bos taurus OX=9913 GN=RDH8 PE=1 SV=1 |
| Q9NYR8 | Retinol dehydrogenase 8 OS=Homo sapiens OX=9606 GN=RDH8 PE=1 SV=1 |
| P14061 | 17-beta-hydroxysteroid dehydrogenase type 1 OS=Homo sapiens OX=9606 GN=HSD17B1 PE=1 SV=3 |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00106 all species → | adh_short | short chain dehydrogenase | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR036291 all species → | Homologous_superfamily | NAD(P)-binding domain superfamily | Interproscan |
| IPR002347 all species → | Family | Short-chain dehydrogenase/reductase SDR | Interproscan |
| IPR020904 all species → | Conserved_site | Short-chain dehydrogenase/reductase, conserved site | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR43391 all species → | RETINOL DEHYDROGENASE-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0016491 all species → | Molecular Function | oxidoreductase activity | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K11150 | RDH8; retinol dehydrogenase 8 | EC:1.1.1.- | Retinol metabolism | ko00830 | deepkoala |
Transcript abundance of g16375.t2 across 39 RNA-seq samples of Acropora digitifera. 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 |
|---|---|---|---|---|---|
| Coral branch | 39 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| 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 |
| SRR23047209 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047210 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047211 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047212 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047213 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047214 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047215 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047216 | 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 |
| SRR23047223 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047224 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047225 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047226 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047227 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047228 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047229 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047230 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047231 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047232 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047233 | 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 |
| SRR23047237 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047238 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047239 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047240 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047241 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047242 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047243 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047244 | 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 | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Acropora digitifera 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 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 |
|---|---|---|---|
| DNase-seq (DHS) | WholeAnimal | 1 | Intron 1 |
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. | 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 → |
