Genomic Location: Scaffold_928__1_contigs__length_67117:28741...29685
NR annotation: MCP4766331.1, 23S rRNA pseudouridine(1911/1915/1917) synthase RluD [Gammaproteobacteria bacterium]
Species Montipora grisea · all data for this species · gene families
| CDS |
| ANN29263-RA |
| Transcript |
| ANN29263-RA |
| Protein |
| ANN29263-RA |
| UniProt accession | Description |
|---|---|
| P65837 | Ribosomal large subunit pseudouridine synthase D OS=Salmonella typhi OX=90370 GN=rluD PE=3 SV=2 |
| P65836 | Ribosomal large subunit pseudouridine synthase D OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) OX=99287 GN=rluD PE=1 SV=2 |
| Q8P682 | Ribosomal large subunit pseudouridine synthase D OS=Xanthomonas campestris pv. campestris (strain ATCC 33913 / DSM 3586 / NCPPB 528 / LMG 568 / P 25) OX=190485 GN=rluD PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0003138 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00849 all species → | PseudoU_synth_2 | RNA pseudouridylate synthase | Family | Interproscan |
| PF01479 all species → | S4 | S4 domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR006145 all species → | Domain | Pseudouridine synthase, RsuA/RluA-like | Interproscan |
| IPR006224 all species → | Conserved_site | Pseudouridine synthase, RluA-like, conserved site | Interproscan |
| IPR020103 all species → | Homologous_superfamily | Pseudouridine synthase, catalytic domain superfamily | Interproscan |
| IPR050188 all species → | Family | RluA Pseudouridine Synthase | Interproscan |
| IPR002942 all species → | Domain | RNA-binding S4 domain | Interproscan |
| IPR036986 all species → | Homologous_superfamily | RNA-binding S4 domain superfamily | Interproscan |
| IPR006225 all species → | Family | Pseudouridine synthase, RluC/RluD | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR21600 all species → | MITOCHONDRIAL RNA PSEUDOURIDINE 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 |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K06180 | rluD; 23S rRNA pseudouridine1911/1915/1917 synthase | EC:5.4.99.23 | Ribosome biogenesis | ko03009 | deepkoala |
Genes whose expression across the transcriptome samples of Montipora grisea 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 Montipora grisea, 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 → |
