Genomic Location: Chr08:10477174...10485788
NR annotation: CAB4005365.1, tRNA pseudouridine(38 39) synthase-like [Paramuricea clavata]
Species Hemicorallium imperiale · all data for this species · gene families
evm.model.Chr08.492 in HIMPE (the gene ID may belong to a different isoform naming scheme). Try the gene search.| UniProt accession | Description |
|---|---|
| Q3SX07 | tRNA pseudouridine(38/39) synthase OS=Bos taurus OX=9913 GN=PUS3 PE=2 SV=1 |
| Q9BZE2 | tRNA pseudouridine(38/39) synthase OS=Homo sapiens OX=9606 GN=PUS3 PE=1 SV=3 |
| Q9JI38 | tRNA pseudouridine(38/39) synthase OS=Mus musculus OX=10090 GN=Pus3 PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006374 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01416 all species → | PseudoU_synth_1 | tRNA pseudouridine synthase | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR020097 all species → | Domain | Pseudouridine synthase I, TruA, alpha/beta domain | Interproscan |
| IPR020103 all species → | Homologous_superfamily | Pseudouridine synthase, catalytic domain superfamily | Interproscan |
| IPR020095 all species → | Homologous_superfamily | Pseudouridine synthase I, TruA, C-terminal | Interproscan |
| IPR001406 all species → | Family | Pseudouridine synthase I, TruA | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11142 all species → | PSEUDOURIDYLATE SYNTHASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0001522 all species → | Biological Process | pseudouridine synthesis | Interproscan |
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0009451 all species → | Biological Process | RNA modification | Interproscan |
| GO:0009982 all species → | Molecular Function | pseudouridine synthase activity | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0005737 all species → | Cellular Component | cytoplasm | Interproscan |
| GO:0031119 all species → | Biological Process | tRNA pseudouridine synthesis | Interproscan |
| GO:1990481 all species → | Biological Process | mRNA pseudouridine synthesis | Interproscan |
evm.model.Chr08.492.Genes whose expression across the transcriptome samples of Hemicorallium imperiale 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 Hemicorallium imperiale, 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. | not in the sequence table | 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. | not in the sequence table | 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 → |
