Genomic Location: chr3:2044336...2057512
NR annotation: XP_048578552.1, alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 [Nematostella vectensis]
Species Aurelia coerulea · all data for this species · gene families
| CDS |
| evm.model.ptg000006l.116 |
| Transcript |
| evm.model.ptg000006l.116 |
| Protein |
| evm.model.ptg000006l.116 |
| UniProt accession | Description |
|---|---|
| Q96Q83 | Alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 OS=Homo sapiens OX=9606 GN=ALKBH3 PE=1 SV=1 |
| Q32L00 | Alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 OS=Bos taurus OX=9913 GN=ALKBH3 PE=2 SV=1 |
| Q8K1E6 | Alpha-ketoglutarate-dependent dioxygenase alkB homolog 3 OS=Mus musculus OX=10090 GN=Alkbh3 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006988 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF13532 all species → | 2OG-FeII_Oxy_2 | 2OG-Fe(II) oxygenase superfamily | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR037151 all species → | Homologous_superfamily | Alpha-ketoglutarate-dependent dioxygenase AlkB-like superfamily | Interproscan |
| IPR005123 all species → | Domain | Oxoglutarate/iron-dependent dioxygenase | Interproscan |
| IPR032854 all species → | Family | Alkylated DNA repair protein alkB homologue 3 | Interproscan |
| IPR027450 all species → | Domain | Alpha-ketoglutarate-dependent dioxygenase AlkB-like | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR31212 all species → | ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ALKB HOMOLOG 3 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0006281 all species → | Biological Process | DNA repair | Interproscan |
| GO:0006307 all species → | Biological Process | DNA alkylation repair | Interproscan |
| GO:0035552 all species → | Biological Process | obsolete oxidative single-stranded DNA demethylation | Interproscan |
| GO:0051213 all species → | Molecular Function | dioxygenase activity | Interproscan |
evm.model.ptg000006l.116.Transcript abundance of evm.model.ptg000006l.116 across 30 RNA-seq samples of Aurelia 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.
Every sample in this dataset carries its own condition — the source metadata gives each run a distinct treatment label — so this table is effectively a sample list. The per-sample chart below is the informative view here.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| whole organism · T_A1ES | 1 | 1 | 28.34 | 28.34 | |
| whole organism · T_C3E | 1 | 1 | 25.52 | 25.52 | |
| whole organism · T_C2P | 1 | 1 | 33.20 | 33.20 | |
| whole organism · T_A2ES | 1 | 1 | 32.63 | 32.63 | |
| whole organism · T_A3ES | 1 | 1 | 42.78 | 42.78 | |
| whole organism · T_C1AS | 1 | 1 | 32.25 | 32.25 | |
| whole organism · T_C2AS | 1 | 1 | 39.53 | 39.53 | |
| whole organism · T_C3AS | 1 | 1 | 36.60 | 36.60 | |
| whole organism · T_A1AS | 1 | 1 | 31.53 | 31.53 | |
| whole organism · T_A2AS | 1 | 1 | 41.13 | 41.13 | |
| whole organism · T_A3AS | 1 | 1 | 37.11 | 37.11 | |
| whole organism · T_C1E | 1 | 1 | 15.86 | 15.86 | |
| whole organism · T_C2E | 1 | 1 | 25.96 | 25.96 | |
| whole organism · T_C3P | 1 | 1 | 30.78 | 30.78 | |
| whole organism · T_AE1 | 1 | 1 | 41.92 | 41.92 | |
| whole organism · T_C3ES | 1 | 1 | 36.76 | 36.76 | |
| whole organism · T_AE2 | 1 | 1 | 28.71 | 28.71 | |
| whole organism · T_AE3 | 1 | 1 | 29.22 | 29.22 | |
| whole organism · T_AES1 | 1 | 1 | 39.59 | 39.59 | |
| whole organism · T_AES2 | 1 | 1 | 44.59 | 44.59 | |
| whole organism · T_AES3 | 1 | 1 | 41.63 | 41.63 | |
| whole organism · T_AAS1 | 1 | 1 | 50.88 | 50.88 | |
| whole organism · T_AAS2 | 1 | 1 | 45.07 | 45.07 | |
| whole organism · T_AAS3 | 1 | 1 | 64.17 | 64.17 | |
| whole organism · T_A1P | 1 | 1 | 32.65 | 32.65 | |
| whole organism · T_A2P | 1 | 1 | 26.81 | 26.81 | |
| whole organism · T_A3P | 1 | 1 | 36.23 | 36.23 | |
| whole organism · T_C1ES | 1 | 1 | 29.78 | 29.78 | |
| whole organism · T_C2ES | 1 | 1 | 40.80 | 40.80 | |
| whole organism · T_C1P | 1 | 1 | 25.54 | 25.54 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR25982246 | whole organism · T_A1ES | whole organism | not recorded | T_A1ES | SRP459341 | 28.34 |
| SRR25982262 | whole organism · T_C3E | whole organism | not recorded | T_C3E | SRP459341 | 25.52 |
| SRR25982274 | whole organism · T_C2P | whole organism | not recorded | T_C2P | SRP459341 | 33.20 |
| SRR25982273 | whole organism · T_A2ES | whole organism | not recorded | T_A2ES | SRP459341 | 32.63 |
| SRR25982272 | whole organism · T_A3ES | whole organism | not recorded | T_A3ES | SRP459341 | 42.78 |
| SRR25982271 | whole organism · T_C1AS | whole organism | not recorded | T_C1AS | SRP459341 | 32.25 |
| SRR25982270 | whole organism · T_C2AS | whole organism | not recorded | T_C2AS | SRP459341 | 39.53 |
| SRR25982269 | whole organism · T_C3AS | whole organism | not recorded | T_C3AS | SRP459341 | 36.60 |
| SRR25982268 | whole organism · T_A1AS | whole organism | not recorded | T_A1AS | SRP459341 | 31.53 |
| SRR25982267 | whole organism · T_A2AS | whole organism | not recorded | T_A2AS | SRP459341 | 41.13 |
| SRR25982266 | whole organism · T_A3AS | whole organism | not recorded | T_A3AS | SRP459341 | 37.11 |
| SRR25982265 | whole organism · T_C1E | whole organism | not recorded | T_C1E | SRP459341 | 15.86 |
| SRR25982264 | whole organism · T_C2E | whole organism | not recorded | T_C2E | SRP459341 | 25.96 |
| SRR25982263 | whole organism · T_C3P | whole organism | not recorded | T_C3P | SRP459341 | 30.78 |
| SRR25982261 | whole organism · T_AE1 | whole organism | not recorded | T_AE1 | SRP459341 | 41.92 |
| SRR25982247 | whole organism · T_C3ES | whole organism | not recorded | T_C3ES | SRP459341 | 36.76 |
| SRR25982260 | whole organism · T_AE2 | whole organism | not recorded | T_AE2 | SRP459341 | 28.71 |
| SRR25982259 | whole organism · T_AE3 | whole organism | not recorded | T_AE3 | SRP459341 | 29.22 |
| SRR25982258 | whole organism · T_AES1 | whole organism | not recorded | T_AES1 | SRP459341 | 39.59 |
| SRR25982257 | whole organism · T_AES2 | whole organism | not recorded | T_AES2 | SRP459341 | 44.59 |
| SRR25982256 | whole organism · T_AES3 | whole organism | not recorded | T_AES3 | SRP459341 | 41.63 |
| SRR25982255 | whole organism · T_AAS1 | whole organism | not recorded | T_AAS1 | SRP459341 | 50.88 |
| SRR25982254 | whole organism · T_AAS2 | whole organism | not recorded | T_AAS2 | SRP459341 | 45.07 |
| SRR25982253 | whole organism · T_AAS3 | whole organism | not recorded | T_AAS3 | SRP459341 | 64.17 |
| SRR25982252 | whole organism · T_A1P | whole organism | not recorded | T_A1P | SRP459341 | 32.65 |
| SRR25982251 | whole organism · T_A2P | whole organism | not recorded | T_A2P | SRP459341 | 26.81 |
| SRR25982250 | whole organism · T_A3P | whole organism | not recorded | T_A3P | SRP459341 | 36.23 |
| SRR25982249 | whole organism · T_C1ES | whole organism | not recorded | T_C1ES | SRP459341 | 29.78 |
| SRR25982248 | whole organism · T_C2ES | whole organism | not recorded | T_C2ES | SRP459341 | 40.80 |
| SRR25982275 | whole organism · T_C1P | whole organism | not recorded | T_C1P | SRP459341 | 25.54 |
Source: CnidoSite RNA-seq expression matrices (ACOER_TPM,
StringTie quantification over 30 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 Aurelia 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 | 18 | evm.model.ptg000008l.416 | 0.818657800046493 |
| Negatively correlated | 9 | evm.model.ptg000006l.174 | -0.733966916989067 |
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 Aurelia 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 → |
