Genomic Location: not available for this species
NR annotation: MBN2490566.1, tyrosine--tRNA ligase [Planctomycetota bacterium]
Species Cassiopea xamachana · all data for this species · gene families
| UniProt accession | Description |
|---|---|
| Q67QD6 | Tyrosine--tRNA ligase OS=Symbiobacterium thermophilum (strain DSM 24528 / JCM 14929 / IAM 14863 / T) OX=292459 GN=tyrS PE=3 SV=1 |
| Q5WEB8 | Tyrosine--tRNA ligase OS=Shouchella clausii (strain KSM-K16) OX=66692 GN=tyrS PE=3 SV=1 |
| Q9K7X9 | Tyrosine--tRNA ligase OS=Halalkalibacterium halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) OX=272558 GN=tyrS PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0014521 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01479 all species → | S4 | S4 domain | Domain | Interproscan |
| PF00579 all species → | tRNA-synt_1b | tRNA synthetases class I (W and Y) | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR002942 all species → | Domain | RNA-binding S4 domain | Interproscan |
| IPR014729 all species → | Homologous_superfamily | Rossmann-like alpha/beta/alpha sandwich fold | Interproscan |
| IPR036986 all species → | Homologous_superfamily | RNA-binding S4 domain superfamily | Interproscan |
| IPR024108 all species → | Family | Tyrosine-tRNA ligase, bacterial-type, type 2 | Interproscan |
| IPR002307 all species → | Family | Tyrosine-tRNA ligase | Interproscan |
| IPR016024 all species → | Homologous_superfamily | Armadillo-type fold | Interproscan |
| IPR002305 all species → | Family | Aminoacyl-tRNA synthetase, class Ic | Interproscan |
| IPR011989 all species → | Homologous_superfamily | Armadillo-like helical | Interproscan |
| IPR024088 all species → | Family | Tyrosine-tRNA ligase, bacterial-type | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11766 all species → | TYROSYL-TRNA SYNTHETASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0004831 all species → | Molecular Function | tyrosine-tRNA ligase activity | Interproscan |
| GO:0000166 all species → | Molecular Function | nucleotide binding | Interproscan |
| GO:0005524 all species → | Molecular Function | ATP binding | Interproscan |
| GO:0006437 all species → | Biological Process | tyrosyl-tRNA aminoacylation | Interproscan |
| GO:0004812 all species → | Molecular Function | aminoacyl-tRNA ligase activity | Interproscan |
| GO:0006418 all species → | Biological Process | tRNA aminoacylation for protein translation | Interproscan |
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0043039 all species → | Biological Process | tRNA aminoacylation | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K12573 | rnr, vacB; ribonuclease R | EC:3.1.13.1 | Transfer RNA biogenesis | ko03016 | deepkoala |
Genes whose expression across the transcriptome samples of Cassiopea xamachana 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 Cassiopea xamachana, 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. | sequence table not available | – |
| 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. | sequence table not available | – |
| 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 → |
