Genomic Location: Acropora_loripes_2:7693735...7696721
NR annotation: XP_029193171.1, retinal homeobox protein Rx1-like [Acropora millepora]
Species Acropora loripes · all data for this species · gene families
| CDS |
| alor_g24803.t1 |
| Transcript |
| alor_g24803.t1 |
| Protein |
| alor_g24803.t1 |
| UniProt accession | Description |
|---|---|
| O42567 | Retinal homeobox protein Rx-B OS=Xenopus laevis OX=8355 GN=rax-b PE=2 SV=2 |
| Q9I9A2 | Retinal homeobox protein Rx2 OS=Oryzias latipes OX=8090 GN=rx2 PE=2 SV=1 |
| O42358 | Retinal homeobox protein Rx3 OS=Danio rerio OX=7955 GN=rx3 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0000263 (this species only) · gene tree & orthology |
| Transcription factor family | Homeobox · all TF in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00046 all species → | Homeodomain | Homeodomain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001356 all species → | Domain | Homeobox domain | Interproscan |
| IPR043562 all species → | Family | Retinal homeobox protein RAX/RAX2 | Interproscan |
| IPR017970 all species → | Conserved_site | Homeobox, conserved site | Interproscan |
| IPR009057 all species → | Homologous_superfamily | Homeobox-like domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR46271 all species → | HOMEOBOX PROTEIN, PUTATIVE-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0000978 all species → | Molecular Function | RNA polymerase II cis-regulatory region sequence-specific DNA binding | Interproscan |
| GO:0000981 all species → | Molecular Function | DNA-binding transcription factor activity, RNA polymerase II-specific | Interproscan |
| GO:0006357 all species → | Biological Process | regulation of transcription by RNA polymerase II | Interproscan |
| GO:0045944 all species → | Biological Process | positive regulation of transcription by RNA polymerase II | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K09332 | RAX, RX; retina and anterior neural fold homeobox protein | - | Transcription factors | ko03000 | deepkoala |
Genes whose expression across the transcriptome samples of Acropora loripes 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 Acropora loripes, 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 → |
