Genomic Location: chr7:16513933...16517836
NR annotation: XP_020897947.1, LOW QUALITY PROTEIN: E3 ubiquitin-protein ligase RNF113A-like [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families
| CDS |
| gene24763.t2 |
| Transcript |
| gene24763.t2 |
| Protein |
| gene24763.t2 |
| UniProt accession | Description |
|---|---|
| Q67ER4 | E3 ubiquitin-protein ligase RNF113A OS=Bos taurus OX=9913 GN=RNF113A PE=2 SV=1 |
| O15541 | E3 ubiquitin-protein ligase RNF113A OS=Homo sapiens OX=9606 GN=RNF113A PE=1 SV=1 |
| Q8IZP6 | RING finger protein 113B OS=Homo sapiens OX=9606 GN=RNF113B PE=1 SV=3 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0008046 (this species only) · gene tree & orthology |
| Transcription factor family | zf-CCCH · all TF in this species |
| Ubiquitin family | E3|E3 activity RING|RING · all ubiquitin genes in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00642 all species → | zf-CCCH | Zinc finger C-x8-C-x5-C-x3-H type (and similar) | Family | Interproscan |
| PF13920 all species → | zf-C3HC4_3 | Zinc finger, C3HC4 type (RING finger) | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR017907 all species → | Conserved_site | Zinc finger, RING-type, conserved site | Interproscan |
| IPR001841 all species → | Domain | Zinc finger, RING-type | Interproscan |
| IPR000571 all species → | Domain | Zinc finger, CCCH-type | Interproscan |
| IPR013083 all species → | Homologous_superfamily | Zinc finger, RING/FYVE/PHD-type | Interproscan |
| IPR039971 all species → | Family | Pre-mRNA-splicing factor CWC24-like | Interproscan |
| IPR036855 all species → | Homologous_superfamily | Zinc finger, CCCH-type superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR12930 all species → | ZINC FINGER PROTEIN 183 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0046872 all species → | Molecular Function | metal ion binding | Interproscan |
| GO:0005684 all species → | Cellular Component | U2-type spliceosomal complex | Interproscan |
| GO:0034247 all species → | Biological Process | snoRNA splicing | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K13127 | RNF113A, CWC24; RING finger protein 113A | - | Spliceosome | ko03041 | deepkoala |
Genes whose expression across the transcriptome samples of Actinoscyphia liui 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 Actinoscyphia liui, 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 → |
