Genomic Location: HOLI00001:2007908...2009260
NR annotation: WP_110971102.1, sigma-54 dependent transcriptional regulator [Pseudomonas huaxiensis]
Species Hydra oligactis · all data for this species · gene families
| CDS |
| HOLI00001.g50594.t1 |
| Transcript |
| HOLI00001.g50594.t1 |
| Protein |
| HOLI00001.G50594 |
| UniProt accession | Description |
|---|---|
| P25852 | Transcriptional regulatory protein ZraR OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) OX=99287 GN=zraR PE=1 SV=2 |
| Q06065 | Regulatory protein AtoC OS=Escherichia coli (strain K12) OX=83333 GN=atoC PE=1 SV=2 |
| Q8Z333 | Transcriptional regulatory protein ZraR OS=Salmonella typhi OX=90370 GN=zraR PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006783 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF02954 all species → | HTH_8 | Bacterial regulatory protein, Fis family | Domain | Interproscan |
| PF00158 all species → | Sigma54_activat | Sigma-54 interaction domain | Domain | Interproscan |
| PF00072 all species → | Response_reg | Response regulator receiver domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR002197 all species → | Domain | DNA binding HTH domain, Fis-type | Interproscan |
| IPR003593 all species → | Domain | AAA+ ATPase domain | Interproscan |
| IPR002078 all species → | Domain | RNA polymerase sigma factor 54 interaction domain | Interproscan |
| IPR025944 all species → | Conserved_site | Sigma-54 interaction domain, conserved site | Interproscan |
| IPR001789 all species → | Domain | Signal transduction response regulator, receiver domain | Interproscan |
| IPR009057 all species → | Homologous_superfamily | Homeobox-like domain superfamily | Interproscan |
| IPR011006 all species → | Homologous_superfamily | CheY-like superfamily | Interproscan |
| IPR025662 all species → | Binding_site | Sigma-54 interaction domain, ATP-binding site 1 | Interproscan |
| IPR027417 all species → | Homologous_superfamily | P-loop containing nucleoside triphosphate hydrolase | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR32071 all species → | TRANSCRIPTIONAL REGULATORY PROTEIN | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0043565 all species → | Molecular Function | sequence-specific DNA binding | Interproscan |
| GO:0016887 all species → | Molecular Function | ATP hydrolysis activity | Interproscan |
| GO:0005524 all species → | Molecular Function | ATP binding | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0008134 all species → | Molecular Function | transcription factor binding | Interproscan |
| GO:0000160 all species → | Biological Process | phosphorelay signal transduction system | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K07714 | atoC; two-component system, NtrC family, response regulator AtoC | - | Two-component system | ko02022 | 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 → |
