Genomic Location: chr3:28502338...28510652
NR annotation: XP_020603974.1, retinoic acid receptor RXR-alpha-B-like [Orbicella faveolata]
Species Catalaphyllia jardinei · all data for this species · gene families
| CDS |
| ENSAVKT00000028355 |
| Transcript |
| ENSAVKT00000028355 |
| Protein |
| ENSAVKP00000026329.1 |
| UniProt accession | Description |
|---|---|
| Q5REL6 | Retinoic acid receptor RXR-gamma OS=Pongo abelii OX=9601 GN=RXRG PE=2 SV=1 |
| Q0GFF6 | Retinoic acid receptor RXR-gamma OS=Sus scrofa OX=9823 GN=RXRG PE=2 SV=2 |
| Q5BJR8 | Retinoic acid receptor RXR-gamma OS=Rattus norvegicus OX=10116 GN=Rxrg PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0000188 (this species only) · gene tree & orthology |
| Transcription factor family | ESR-like · all TF in this species |
| Transcription factor family | Miscellaneous · all TF in this species |
| Transcription factor family | NGFIB-like · all TF in this species |
| Transcription factor family | RXR-like · all TF in this species |
| Transcription factor family | SF-like · all TF in this species |
| Transcription factor family | THR-like · all TF in this species |
| Transcription factor family | GCNF-like · all TF in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00104 all species → | Hormone_recep | Ligand-binding domain of nuclear hormone receptor | Domain | Interproscan |
| PF00105 all species → | zf-C4 | Zinc finger, C4 type (two domains) | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR050200 all species → | Family | Nuclear hormone receptor family NR3 subfamily | Interproscan |
| IPR035500 all species → | Homologous_superfamily | Nuclear hormone receptor-like domain superfamily | Interproscan |
| IPR000536 all species → | Domain | Nuclear hormone receptor, ligand-binding domain | Interproscan |
| IPR013088 all species → | Homologous_superfamily | Zinc finger, NHR/GATA-type | Interproscan |
| IPR001628 all species → | Domain | Zinc finger, nuclear hormone receptor-type | Interproscan |
| IPR000003 all species → | Family | Retinoid X receptor/HNF4 | Interproscan |
| IPR001723 all species → | Family | Nuclear hormone receptor | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR48092 all species → | KNIRPS-RELATED PROTEIN-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000790 all species → | Cellular Component | chromatin | Interproscan |
| GO:0004879 all species → | Molecular Function | nuclear receptor activity | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| GO:0003700 all species → | Molecular Function | DNA-binding transcription factor activity | Interproscan |
| GO:0043565 all species → | Molecular Function | sequence-specific DNA binding | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0003707 all species → | Molecular Function | nuclear steroid receptor activity | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
ENSAVKP00000026329.1.Genes whose expression across the transcriptome samples of Catalaphyllia jardinei 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 Catalaphyllia jardinei, 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 → |
