Genomic Location: ptg000025l:16120337...16133328
NR annotation: XP_015780934.1, PREDICTED: ranBP-type and C3HC4-type zinc finger-containing protein 1-like [Acropora digitifera]
Species Acropora pulchra · all data for this species · gene families
| CDS |
| FUN_036181-T1 |
| Transcript |
| FUN_036181-T1 |
| Protein |
| FUN_036181-T1 |
| UniProt accession | Description |
|---|---|
| A9JTG5 | RanBP-type and C3HC4-type zinc finger-containing protein 1 OS=Danio rerio OX=7955 GN=rbck1 PE=2 SV=1 |
| Q62921 | RanBP-type and C3HC4-type zinc finger-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Rbck1 PE=1 SV=3 |
| E6ZIJ1 | RanBP-type and C3HC4-type zinc finger-containing protein 1 OS=Dicentrarchus labrax OX=13489 GN=rbck1 PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0003389 (this species only) · gene tree & orthology |
| Ubiquitin family | UBD|ZnF|NZF · all ubiquitin genes in this species |
| Ubiquitin family | ULD|UFD/UBQ|UBQ_Other · all ubiquitin genes in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00568 all species → | WH1 | WH1 domain | Domain | Interproscan |
| PF00097 all species → | zf-C3HC4 | 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 |
| IPR000697 all species → | Domain | WH1/EVH1 domain | Interproscan |
| IPR051628 all species → | Family | Linear Ubiquitination-Associated E3 Ligases | Interproscan |
| IPR029071 all species → | Homologous_superfamily | Ubiquitin-like domain superfamily | Interproscan |
| IPR001876 all species → | Domain | Zinc finger, RanBP2-type | Interproscan |
| IPR036443 all species → | Homologous_superfamily | Zinc finger, RanBP2-type superfamily | Interproscan |
| IPR001841 all species → | Domain | Zinc finger, RING-type | Interproscan |
| IPR018957 all species → | Domain | Zinc finger, C3HC4 RING-type | Interproscan |
| IPR011993 all species → | Homologous_superfamily | PH-like domain superfamily | Interproscan |
| IPR047558 all species → | Domain | Heme-oxidized IRP2 ubiquitin ligase 1, BRcat domain | Interproscan |
| IPR047559 all species → | Domain | Heme-oxidized IRP2 ubiquitin ligase 1, modified RING finger, HC subclass | Interproscan |
| IPR044066 all species → | Domain | TRIAD supradomain | Interproscan |
| IPR013083 all species → | Homologous_superfamily | Zinc finger, RING/FYVE/PHD-type | Interproscan |
| IPR047557 all species → | Domain | Heme-oxidized IRP2 ubiquitin ligase 1, Rcat domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR22770 all species → | UBIQUITIN CONJUGATING ENZYME 7 INTERACTING PROTEIN-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000151 all species → | Cellular Component | ubiquitin ligase complex | Interproscan |
| GO:0004842 all species → | Molecular Function | ubiquitin-protein transferase activity | Interproscan |
| GO:0043130 all species → | Molecular Function | ubiquitin binding | Interproscan |
| GO:0043161 all species → | Biological Process | proteasome-mediated ubiquitin-dependent protein catabolic process | Interproscan |
| GO:0097039 all species → | Biological Process | protein linear polyubiquitination | Interproscan |
| GO:0046872 all species → | Molecular Function | metal ion binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K10630 | RBCK1, HOIL1; RanBP-type and C3HC4-type zinc finger-containing protein 1 | EC:2.3.2.31 | Ubiquitin system | ko04121 | deepkoala |
Genes whose expression across the transcriptome samples of Acropora pulchra 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 pulchra, 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 → |
