Genomic Location: Scaffold_5450__1_contigs__length_29377:16229...17485
NR annotation: MCP4096755.1, serine hydroxymethyltransferase [Planctomycetaceae bacterium]
Species Montipora grisea · all data for this species · gene families
| CDS |
| ANN39643-RA |
| Transcript |
| ANN39643-RA |
| Protein |
| ANN39643-RA |
| UniProt accession | Description |
|---|---|
| Q7UQN2 | Serine hydroxymethyltransferase OS=Rhodopirellula baltica (strain DSM 10527 / NCIMB 13988 / SH1) OX=243090 GN=glyA PE=3 SV=1 |
| A8FIC1 | Serine hydroxymethyltransferase OS=Bacillus pumilus (strain SAFR-032) OX=315750 GN=glyA PE=3 SV=1 |
| Q65DW5 | Serine hydroxymethyltransferase OS=Bacillus licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505 / CCUG 7422 / NBRC 12200 / NCIMB 9375 / NCTC 10341 / NRRL NRS-1264 / Gibson 46) OX=279010 GN=glyA PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0001352 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00464 all species → | SHMT | Serine hydroxymethyltransferase | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001085 all species → | Family | Serine hydroxymethyltransferase | Interproscan |
| IPR015422 all species → | Homologous_superfamily | Pyridoxal phosphate-dependent transferase, small domain | Interproscan |
| IPR015421 all species → | Homologous_superfamily | Pyridoxal phosphate-dependent transferase, major domain | Interproscan |
| IPR039429 all species → | Domain | Serine hydroxymethyltransferase-like domain | Interproscan |
| IPR015424 all species → | Homologous_superfamily | Pyridoxal phosphate-dependent transferase | Interproscan |
| IPR019798 all species → | Binding_site | Serine hydroxymethyltransferase, pyridoxal phosphate binding site | Interproscan |
| IPR049943 all species → | Family | Serine hydroxymethyltransferase-like | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11680 all species → | SERINE HYDROXYMETHYLTRANSFERASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0004372 all species → | Molecular Function | glycine hydroxymethyltransferase activity | Interproscan |
| GO:0019264 all species → | Biological Process | glycine biosynthetic process from serine | Interproscan |
| GO:0030170 all species → | Molecular Function | pyridoxal phosphate binding | Interproscan |
| GO:0035999 all species → | Biological Process | tetrahydrofolate interconversion | Interproscan |
| GO:0005737 all species → | Cellular Component | cytoplasm | Interproscan |
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0006565 all species → | Biological Process | L-serine catabolic process | Interproscan |
| GO:0006730 all species → | Biological Process | one-carbon metabolic process | Interproscan |
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| GO:0046653 all species → | Biological Process | tetrahydrofolate metabolic process | Interproscan |
| GO:0046655 all species → | Biological Process | folic acid metabolic process | Interproscan |
| GO:0050897 all species → | Molecular Function | cobalt ion binding | Interproscan |
| GO:0070905 all species → | Molecular Function | serine binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K00600 | glyA, SHMT; glycine hydroxymethyltransferase | EC:2.1.2.1 | Antifolate resistance | ko01523 | 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 → |
