Genomic Location: Scaffold_66__1_contigs__length_383707:172082...173758
NR annotation: WP_200605931.1, ribonuclease J [Thermohalobaculum xanthum]
Species Montipora grisea · all data for this species · gene families
| CDS |
| ANN24601-RA |
| Transcript |
| ANN24601-RA |
| Protein |
| ANN24601-RA |
| UniProt accession | Description |
|---|---|
| M4MR97 | Ribonuclease J OS=Sinorhizobium meliloti (strain Sm2011 / Rm2011 / 2011) OX=1286640 GN=rnj PE=3 SV=1 |
| P54122 | Ribonuclease J OS=Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / BCRC 11384 / CCUG 27702 / LMG 3730 / NBRC 12168 / NCIMB 10025 / NRRL B-2784 / 534) OX=196627 GN=rnj PE=3 SV=2 |
| Q49WL3 | Ribonuclease J 1 OS=Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / DSM 20229 / NCIMB 8711 / NCTC 7292 / S-41) OX=342451 GN=rnj1 PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0018307 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00753 all species → | Lactamase_B | Metallo-beta-lactamase superfamily | Domain | Interproscan |
| PF17770 all species → | RNase_J_C | Ribonuclease J C-terminal domain | Domain | Interproscan |
| PF07521 all species → | RMMBL | Zn-dependent metallo-hydrolase RNA specificity domain | Motif | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR042173 all species → | Homologous_superfamily | Ribonuclease J, domain 2 | Interproscan |
| IPR001279 all species → | Domain | Metallo-beta-lactamase | Interproscan |
| IPR036866 all species → | Homologous_superfamily | Ribonuclease Z/Hydroxyacylglutathione hydrolase-like | Interproscan |
| IPR041636 all species → | Domain | Ribonuclease J, C-terminal | Interproscan |
| IPR011108 all species → | Domain | Zn-dependent metallo-hydrolase, RNA specificity domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR43694 all species → | RIBONUCLEASE J | Interproscan |
ANN24601-RA in Montipora grisea.| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K12574 | rnj; ribonuclease J | EC:3.1.-.- | Messenger RNA biogenesis | ko03019 | 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 → |