Genomic Location: chr5:2894482...2901985
NR annotation: XP_028391062.1, poly(U)-binding-splicing factor PUF60-like isoform X2 [Dendronephthya gigantea]
Species Muricea muricata · all data for this species · gene families
| CDS |
| BRAKERXEIT00000047111 |
| Transcript |
| BRAKERXEIT00000047111 |
| Protein |
| BRAKERXEIP00000047111.1 |
| UniProt accession | Description |
|---|---|
| Q2HJG2 | Poly(U)-binding-splicing factor PUF60 OS=Bos taurus OX=9913 GN=PUF60 PE=2 SV=1 |
| Q3UEB3 | Poly(U)-binding-splicing factor PUF60 OS=Mus musculus OX=10090 GN=Puf60 PE=1 SV=2 |
| Q9WV25 | Poly(U)-binding-splicing factor PUF60 OS=Rattus norvegicus OX=10116 GN=Puf60 PE=2 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0003453 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00076 all species → | RRM_1 | RNA recognition motif | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR035979 all species → | Homologous_superfamily | RNA-binding domain superfamily | Interproscan |
| IPR000504 all species → | Domain | RNA recognition motif domain | Interproscan |
| IPR003954 all species → | Domain | RNA recognition motif domain, eukaryote | Interproscan |
| IPR051974 all species → | Family | Poly(U)-binding-splicing regulator | Interproscan |
| IPR034209 all species → | Domain | PUF60, RNA recognition motif 1 | Interproscan |
| IPR034211 all species → | Domain | PUF60, RNA recognition motif 2 | Interproscan |
| IPR012677 all species → | Homologous_superfamily | Nucleotide-binding alpha-beta plait domain superfamily | Interproscan |
| IPR006532 all species → | Family | Poly-U binding splicing factor, PUF60-like | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR47330 all species → | POLY(U)-BINDING-SPLICING FACTOR PUF60-B-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0000380 all species → | Biological Process | alternative mRNA splicing, via spliceosome | Interproscan |
| GO:0000381 all species → | Biological Process | regulation of alternative mRNA splicing, via spliceosome | Interproscan |
| GO:0006376 all species → | Biological Process | mRNA splice site recognition | Interproscan |
| GO:0071011 all species → | Cellular Component | precatalytic spliceosome | Interproscan |
| GO:0071013 all species → | Cellular Component | catalytic step 2 spliceosome | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K12838 | PUF60; poly(U)-binding-splicing factor PUF60 | - | Spliceosome | ko03041 | deepkoala |
Genes whose expression across the transcriptome samples of Muricea muricata 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 Muricea muricata, 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 → |
