Genomic Location: HOLI00580:293700...294482
NR annotation: MBT9514400.1, LysR family transcriptional regulator [Acidovorax sp.]
Species Hydra oligactis · all data for this species · gene families
| CDS |
| HOLI00580.g30070.t1 |
| Transcript |
| HOLI00580.g30070.t1 |
| Protein |
| HOLI00580.G30070 |
| UniProt accession | Description |
|---|---|
| P0DUU5 | HTH-type transcriptional regulator AceR OS=Acinetobacter baumannii (strain ATCC 17978 / DSM 105126 / CIP 53.77 / LMG 1025 / NCDC KC755 / 5377) OX=400667 GN=aceR PE=1 SV=1 |
| P52691 | Probable HTH-type transcriptional regulator LrrA OS=Synechococcus elongatus (strain ATCC 33912 / PCC 7942 / FACHB-805) OX=1140 GN=lrrA PE=3 SV=2 |
| Q44311 | HTH-type transcriptional regulator SoxR OS=Arthrobacter sp. (strain TE1826) OX=68999 GN=soxR PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0042697 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00126 all species → | HTH_1 | Bacterial regulatory helix-turn-helix protein, lysR family | Domain | Interproscan |
| PF03466 all species → | LysR_substrate | LysR substrate binding domain | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR000847 all species → | Domain | Transcription regulator HTH, LysR | Interproscan |
| IPR036388 all species → | Homologous_superfamily | Winged helix-like DNA-binding domain superfamily | Interproscan |
| IPR005119 all species → | Domain | LysR, substrate-binding | Interproscan |
| IPR036390 all species → | Homologous_superfamily | Winged helix DNA-binding domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR30427 all species → | TRANSCRIPTIONAL ACTIVATOR PROTEIN LYSR | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003700 all species → | Molecular Function | DNA-binding transcription factor activity | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0010628 all species → | Biological Process | positive regulation of gene expression | Interproscan |
| GO:0043565 all species → | Molecular Function | sequence-specific DNA binding | Interproscan |
HOLI00580.G30070.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 → |
