Genomic Location: not available for this species
NR annotation: WP_170402382.1, LacI family DNA-binding transcriptional regulator [Ruegeria arenilitoris]
Species Cassiopea xamachana · all data for this species · gene families
| UniProt accession | Description |
|---|---|
| Q54430 | Sucrose operon repressor OS=Streptococcus mutans serotype c (strain ATCC 700610 / UA159) OX=210007 GN=scrR PE=4 SV=2 |
| Q9I1F6 | HTH-type transcriptional regulator GntR OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=gntR PE=1 SV=1 |
| P77615 | Uncharacterized HTH-type transcriptional regulator YcjW OS=Escherichia coli (strain K12) OX=83333 GN=ycjW PE=4 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0084414 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00356 all species → | LacI | Bacterial regulatory proteins, lacI family | Domain | Interproscan |
| PF00532 all species → | Peripla_BP_1 | Periplasmic binding proteins and sugar binding domain of LacI family | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR010982 all species → | Homologous_superfamily | Lambda repressor-like, DNA-binding domain superfamily | Interproscan |
| IPR000843 all species → | Domain | LacI-type HTH domain | Interproscan |
| IPR028082 all species → | Homologous_superfamily | Periplasmic binding protein-like I | Interproscan |
| IPR001761 all species → | Domain | Periplasmic binding protein/LacI sugar binding domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR30146 all species → | LACI-RELATED TRANSCRIPTIONAL REPRESSOR | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0000976 all species → | Molecular Function | transcription cis-regulatory region binding | Interproscan |
| GO:0003700 all species → | Molecular Function | DNA-binding transcription factor activity | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K02529 | galR; LacI family transcriptional regulator, galactose operon repressor | - | Transcription factors | ko03000 | deepkoala |
Genes whose expression across the transcriptome samples of Cassiopea xamachana 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 Cassiopea xamachana, 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. | sequence table not available | – |
| 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. | sequence table not available | – |
| 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 → |
