Genomic Location: HOLI00001:5684537...5685331
NR annotation: WP_075801547.1, protocatechuate 3,4-dioxygenase subunit beta [Pseudomonas putida]
Species Hydra oligactis · all data for this species · gene families
| CDS |
| HOLI00001.g53471.t1 |
| Transcript |
| HOLI00001.g53471.t1 |
| Protein |
| HOLI00001.G53471 |
| UniProt accession | Description |
|---|---|
| P00437 | Protocatechuate 3,4-dioxygenase beta chain OS=Pseudomonas putida OX=303 GN=pcaH PE=1 SV=3 |
| P20372 | Protocatechuate 3,4-dioxygenase beta chain OS=Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1) OX=62977 GN=pcaH PE=1 SV=2 |
| P15110 | Protocatechuate 3,4-dioxygenase beta chain OS=Burkholderia cepacia OX=292 GN=pcaH PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0062457 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF12391 all species → | PCDO_beta_N | Protocatechuate 3,4-dioxygenase beta subunit N terminal | Family | Interproscan |
| PF00775 all species → | Dioxygenase_C | Dioxygenase | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR015889 all species → | Homologous_superfamily | Intradiol ring-cleavage dioxygenase, core | Interproscan |
| IPR024756 all species → | Domain | Protocatechuate 3,4-dioxygenase beta subunit, N-terminal | Interproscan |
| IPR012785 all species → | Family | Protocatechuate 3,4-dioxygenase, beta subunit | Interproscan |
| IPR000627 all species → | Domain | Intradiol ring-cleavage dioxygenase, C-terminal | Interproscan |
| IPR050770 all species → | Family | Intradiol Ring-Cleavage Dioxygenase | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR33711 all species → | DIOXYGENASE, PUTATIVE (AFU_ORTHOLOGUE AFUA_2G02910)-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005506 all species → | Molecular Function | iron ion binding | Interproscan |
| GO:0016702 all species → | Molecular Function | oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen | Interproscan |
| GO:0018578 all species → | Molecular Function | protocatechuate 3,4-dioxygenase activity | Interproscan |
| GO:0019619 all species → | Biological Process | 3,4-dihydroxybenzoate catabolic process | Interproscan |
| GO:0003824 all species → | Molecular Function | catalytic activity | Interproscan |
| GO:0006725 all species → | Biological Process | obsolete cellular aromatic compound metabolic process | Interproscan |
| GO:0008199 all species → | Molecular Function | ferric iron binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K00449 | pcaH; protocatechuate 3,4-dioxygenase, beta subunit | EC:1.13.11.3 | Polycyclic aromatic hydrocarbon degradation | ko00624 | deepkoala |
Genes whose expression across the transcriptome samples of Hydra oligactis 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 Hydra oligactis, 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 → |
