Genomic Location: Contig00533:1632030...1647241
NR annotation: CAB3985560.1, TNF receptor-associated factor 3-like [Paramuricea clavata]
Species Paragorgia papillata · all data for this species · gene families
| CDS |
| Ppa0G368720 |
| Transcript |
| Ppa0G368720 |
| Protein |
| Ppa0G368720 |
| UniProt accession | Description |
|---|---|
| Q60803 | TNF receptor-associated factor 3 OS=Mus musculus OX=10090 GN=Traf3 PE=1 SV=2 |
| Q13114 | TNF receptor-associated factor 3 OS=Homo sapiens OX=9606 GN=TRAF3 PE=1 SV=2 |
| P70191 | TNF receptor-associated factor 5 OS=Mus musculus OX=10090 GN=Traf5 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0000127 (this species only) · gene tree & orthology |
| Ubiquitin family | E3|E3 activity RING|RING · all ubiquitin genes in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF21363 all species → | TRAF3_RING | TNF receptor-associated factor 2/3/5, RING domain | Domain | Interproscan |
| PF02176 all species → | zf-TRAF | TRAF-type zinc finger | Family | Interproscan |
| PF21355 all species → | TRAF-mep_MATH | TRAF/meprin, MATH domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001293 all species → | Domain | Zinc finger, TRAF-type | Interproscan |
| IPR008974 all species → | Homologous_superfamily | TRAF-like | Interproscan |
| IPR002083 all species → | Domain | MATH/TRAF domain | Interproscan |
| IPR017907 all species → | Conserved_site | Zinc finger, RING-type, conserved site | Interproscan |
| IPR012227 all species → | Family | TNF receptor-associated factor TRAF, metazoa | Interproscan |
| IPR001841 all species → | Domain | Zinc finger, RING-type | Interproscan |
| IPR049440 all species → | Domain | TNF receptor-associated factor 3/5, RING domain | Interproscan |
| IPR013083 all species → | Homologous_superfamily | Zinc finger, RING/FYVE/PHD-type | Interproscan |
| IPR049342 all species → | Domain | TRAF1-6/MEP1A/B-like, MATH domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10131 all species → | TNF RECEPTOR ASSOCIATED FACTOR | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0033209 all species → | Biological Process | tumor necrosis factor-mediated signaling pathway | Interproscan |
| GO:0070534 all species → | Biological Process | protein K63-linked ubiquitination | Interproscan |
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| GO:0005515 all species → | Molecular Function | protein binding | Interproscan |
| GO:0007165 all species → | Biological Process | signal transduction | Interproscan |
| GO:0042981 all species → | Biological Process | regulation of apoptotic process | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03174 | TRAF3; TNF receptor-associated factor 3 | - | Alcoholic liver disease | ko04936 | deepkoala |
Genes whose expression across the transcriptome samples of Paragorgia papillata 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 Paragorgia papillata, 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 → |
