Genomic Location: JASJOG010000263.1:305432...381254
NR annotation: CAB4010273.1, Methionine synthase, partial [Paramuricea clavata]
Species Heliopora coerulea · all data for this species · gene families
| CDS |
| ENSBQFT00000048404 |
| Protein |
| ENSBQFP00000043004.1 |
| UniProt accession | Description |
|---|---|
| Q4JIJ3 | Methionine synthase OS=Bos taurus OX=9913 GN=MTR PE=2 SV=1 |
| Q9Z2Q4 | Methionine synthase OS=Rattus norvegicus OX=10116 GN=Mtr PE=1 SV=1 |
| Q99707 | Methionine synthase OS=Homo sapiens OX=9606 GN=MTR PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0002666 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00809 all species → | Pterin_bind | Pterin binding enzyme | Domain | Interproscan |
| PF02310 all species → | B12-binding | B12 binding domain | Domain | Interproscan |
| PF02965 all species → | Met_synt_B12 | Vitamin B12 dependent methionine synthase, activation domain | Domain | Interproscan |
| PF02607 all species → | B12-binding_2 | B12 binding domain | Domain | Interproscan |
| PF02574 all species → | S-methyl_trans | Homocysteine S-methyltransferase | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR037010 all species → | Homologous_superfamily | Vitamin B12-dependent methionine synthase, activation domain superfamily | Interproscan |
| IPR011005 all species → | Homologous_superfamily | Dihydropteroate synthase-like superfamily | Interproscan |
| IPR033706 all species → | Domain | Methionine synthase, B12-binding domain | Interproscan |
| IPR036594 all species → | Homologous_superfamily | Methionine synthase domain | Interproscan |
| IPR003726 all species → | Domain | Homocysteine-binding domain | Interproscan |
| IPR000489 all species → | Domain | Pterin-binding domain | Interproscan |
| IPR006158 all species → | Domain | Cobalamin (vitamin B12)-binding domain | Interproscan |
| IPR036589 all species → | Homologous_superfamily | Homocysteine-binding domain superfamily | Interproscan |
| IPR011822 all species → | Family | Cobalamin-dependent methionine synthase | Interproscan |
| IPR004223 all species → | Domain | Vitamin B12-dependent methionine synthase, activation domain | Interproscan |
| IPR003759 all species → | Domain | Cobalamin (vitamin B12)-binding module, cap domain | Interproscan |
| IPR050554 all species → | Family | Methionine Synthase/Corrinoid | Interproscan |
| IPR036724 all species → | Homologous_superfamily | Cobalamin-binding domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR45833 all species → | METHIONINE SYNTHASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0008705 all species → | Molecular Function | methionine synthase activity | Interproscan |
| GO:0009086 all species → | Biological Process | methionine biosynthetic process | Interproscan |
| GO:0044237 all species → | Biological Process | obsolete cellular metabolic process | Interproscan |
| GO:0031419 all species → | Molecular Function | cobalamin binding | Interproscan |
| GO:0042558 all species → | Biological Process | pteridine-containing compound metabolic process | Interproscan |
| GO:0046872 all species → | Molecular Function | metal ion binding | Interproscan |
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0046653 all species → | Biological Process | tetrahydrofolate metabolic process | Interproscan |
| GO:0050667 all species → | Biological Process | homocysteine metabolic process | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K00548 | metH, MTR; 5-methyltetrahydrofolate--homocysteine methyltransferase | EC:2.1.1.13 | Cobalamin transport and metabolism | ko04980 | deepkoala |
Transcript abundance of ENSBQFP00000043004.1 across 37 RNA-seq samples of Heliopora coerulea. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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 | 0 | 0.00 | 0.00 | |
| polyp and skeleton · 31C, 3week | 6 | 0 | 0.00 | 0.00 | |
| polyp and skeleton · 28C, 3week | 6 | 0 | 0.00 | 0.00 | |
| polyp and skeleton · 26C, 3week | 4 | 0 | 0.00 | 0.00 | |
| polyp and skeleton · 28C, 24hr | 2 | 0 | 0.00 | 0.00 | |
| polyp and skeleton · 31C, 24hr | 2 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| ERR6178387 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178388 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178389 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178770 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178771 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178772 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178773 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178774 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178775 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178776 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178777 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178778 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178779 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178780 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178781 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178782 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| ERR6178783 | Whole coral | Whole coral | not recorded | not recorded | ERP120267 | 0.00 |
| SRR12578065 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 0.00 |
| SRR12578066 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 0.00 |
| SRR12578068 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 0.00 |
| SRR12587799 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 0.00 |
| SRR12587800 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 0.00 |
| SRR12587804 | polyp and skeleton · 31C, 3week | polyp and skeleton | not recorded | 31C, 3week | SRP115860 | 0.00 |
| SRR12578067 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR12587802 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR12587803 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR12587807 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR12587808 | polyp and skeleton · 28C, 3week | polyp and skeleton | not recorded | 28C, 3week | SRP115860 | 0.00 |
| SRR5949849 | 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 | 0.00 |
| SRR12587801 | polyp and skeleton · 26C, 3week | polyp and skeleton | not recorded | 26C, 3week | SRP115860 | 0.00 |
| SRR12587805 | 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 |
| SRR12578063 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 0.00 |
| SRR5949850 | polyp and skeleton · 28C, 24hr | polyp and skeleton | not recorded | 28C, 24hr | SRP115860 | 0.00 |
| SRR12578064 | polyp and skeleton · 31C, 24hr | polyp and skeleton | not recorded | 31C, 24hr | SRP115860 | 0.00 |
| 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 | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Heliopora coerulea network, in either direction — it is not one of the genes the network was built from (the network covers genes with enough expression variation across the transcriptome samples). The counts above are a property of the network, not a failed lookup.
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.
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. | 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 → |
