Genomic Location: JASJOG010000036.1:1943710...2020299
NR annotation: XP_028393679.1, methionine--tRNA ligase, cytoplasmic-like isoform X1 [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families
| CDS |
| ENSBQFT00000016828 |
| Protein |
| ENSBQFP00000015112.1 |
| UniProt accession | Description |
|---|---|
| Q6PF21 | Methionine--tRNA ligase, cytoplasmic OS=Xenopus laevis OX=8355 GN=mars1 PE=2 SV=1 |
| P56192 | Methionine--tRNA ligase, cytoplasmic OS=Homo sapiens OX=9606 GN=MARS1 PE=1 SV=2 |
| Q2T9L8 | Methionine--tRNA ligase, cytoplasmic OS=Bos taurus OX=9913 GN=MARS1 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0002200 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF13410 all species → | GST_C_2 | Glutathione S-transferase, C-terminal domain | Domain | Interproscan |
| PF09334 all species → | tRNA-synt_1g | tRNA synthetases class I (M) | Family | Interproscan |
| PF19303 all species → | Anticodon_3 | Anticodon binding domain of methionyl tRNA ligase | Domain | Interproscan |
| PF00458 all species → | WHEP-TRS | WHEP-TRS domain | Domain | Interproscan |
| PF18485 all species → | GST_N_5 | Glutathione S-transferase, N-terminal domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR023458 all species → | Family | Methionine-tRNA ligase, type 1 | Interproscan |
| IPR004045 all species → | Domain | Glutathione S-transferase, N-terminal | Interproscan |
| IPR029038 all species → | Homologous_superfamily | Methionyl-tRNA synthetase, Zn-domain | Interproscan |
| IPR009068 all species → | Homologous_superfamily | uS15/NS1, RNA-binding domain superfamily | Interproscan |
| IPR001412 all species → | Conserved_site | Aminoacyl-tRNA synthetase, class I, conserved site | Interproscan |
| IPR000738 all species → | Domain | WHEP-TRS domain | Interproscan |
| IPR015413 all species → | Domain | Methionyl/Leucyl tRNA synthetase | Interproscan |
| IPR041872 all species → | Domain | Methionyl-tRNA synthetase, anticodon-binding domain | Interproscan |
| IPR009080 all species → | Homologous_superfamily | Aminoacyl-tRNA synthetase, class Ia, anticodon-binding | Interproscan |
| IPR010987 all species → | Domain | Glutathione S-transferase, C-terminal-like | Interproscan |
| IPR033911 all species → | Domain | Methioninyl-tRNA synthetase core domain | Interproscan |
| IPR041598 all species → | Domain | Methionine--tRNA ligase, N-terminal | Interproscan |
| IPR036282 all species → | Homologous_superfamily | Glutathione S-transferase, C-terminal domain superfamily | Interproscan |
| IPR014758 all species → | Family | Methionyl-tRNA synthetase | Interproscan |
| IPR036249 all species → | Homologous_superfamily | Thioredoxin-like superfamily | Interproscan |
| IPR014729 all species → | Homologous_superfamily | Rossmann-like alpha/beta/alpha sandwich fold | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR45765 all species → | METHIONINE--TRNA LIGASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0004825 all species → | Molecular Function | methionine-tRNA ligase activity | Interproscan |
| GO:0000166 all species → | Molecular Function | nucleotide binding | Interproscan |
| GO:0004812 all species → | Molecular Function | aminoacyl-tRNA ligase activity | Interproscan |
| GO:0005524 all species → | Molecular Function | ATP binding | Interproscan |
| GO:0006418 all species → | Biological Process | tRNA aminoacylation for protein translation | Interproscan |
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0006431 all species → | Biological Process | methionyl-tRNA aminoacylation | Interproscan |
| GO:0017101 all species → | Cellular Component | aminoacyl-tRNA synthetase multienzyme complex | Interproscan |
ENSBQFP00000015112.1.Transcript abundance of ENSBQFP00000015112.1 across 37 RNA-seq samples of Heliopora coerulea. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| Whole coral | 17 | 17 | 13.32 | 17.93 | |
| polyp and skeleton · 31C, 3week | 6 | 6 | 15.13 | 19.15 | |
| polyp and skeleton · 28C, 3week | 6 | 5 | 19.05 | 38.51 | |
| polyp and skeleton · 26C, 3week | 4 | 2 | 11.02 | 25.16 | |
| polyp and skeleton · 28C, 24hr | 2 | 2 | 20.30 | 20.59 | |
| polyp and skeleton · 31C, 24hr | 2 | 1 | 10.94 | 21.89 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| ERR6178387 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 17.93 |
| ERR6178780 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 16.75 |
| ERR6178770 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 15.90 |
| ERR6178781 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 15.40 |
| ERR6178776 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 14.93 |
| ERR6178388 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 14.90 |
| ERR6178777 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 13.92 |
| ERR6178783 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 13.35 |
| ERR6178778 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 13.21 |
| ERR6178779 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 13.04 |
| ERR6178773 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 12.98 |
| ERR6178772 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 12.43 |
| ERR6178782 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 12.23 |
| ERR6178389 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 11.47 |
| ERR6178775 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 11.39 |
| ERR6178771 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 8.99 |
| ERR6178774 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 7.59 |
| SRR12578066 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 19.15 |
| SRR12587800 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 17.25 |
| SRR12578065 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 17.12 |
| SRR12587804 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 15.36 |
| SRR12578068 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 13.82 |
| SRR12587799 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 8.07 |
| SRR5949849 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 38.51 |
| SRR12587802 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 27.25 |
| SRR12587803 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 17.83 |
| SRR12587808 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 17.14 |
| SRR12587807 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 13.59 |
| SRR12578067 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR12587798 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 25.16 |
| SRR12587805 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 18.93 |
| SRR12587801 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 0.00 |
| SRR12587806 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 0.00 |
| SRR5949850 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 20.59 |
| SRR12578063 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 20.01 |
| SRR12578064 | polyp and skeleton · 31C, 24hr | polyp and skeleton | not recorded | 31C, 24hr | SRP115860 | 21.89 |
| SRR5949848 | polyp and skeleton · 31C, 24hr | polyp and skeleton | not recorded | 31C, 24hr | SRP115860 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (HCOER_TPM,
StringTie quantification over 37 runs), joined to SRA sample
metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped
by the descriptor carried in the expression matrix itself.
Genes whose expression across the transcriptome samples of Heliopora coerulea 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.
| Direction | Partners | Most correlated partner | PCC |
|---|---|---|---|
| Positively correlated | 26 | ENSBQFP00000012954 | 0.86836643716523 |
| Negatively correlated | 7 | ENSBQFP00000006985 | -0.657194304732729 |
Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list. Partner counts were matched on ENSBQFP00000015112, the spelling this network uses.
Whether this gene can be visualised in the single-cell atlases of Heliopora coerulea, 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. | ready | open → |
| 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 → |
