Genomic Location: Contig133:421737...422645
NR annotation: WP_014455699.1, pyridoxal 5'-phosphate synthase lyase subunit PdxS [Spirochaeta africana]
Species Hemicorallium imperiale · all data for this species · gene families
evm.model.Contig133.194 in HIMPE (the gene ID may belong to a different isoform naming scheme). Try the gene search.| UniProt accession | Description |
|---|---|
| B0KAS1 | Pyridoxal 5'-phosphate synthase subunit PdxS OS=Thermoanaerobacter pseudethanolicus (strain ATCC 33223 / 39E) OX=340099 GN=pdxS PE=3 SV=1 |
| B8E121 | Pyridoxal 5'-phosphate synthase subunit PdxS OS=Dictyoglomus turgidum (strain DSM 6724 / Z-1310) OX=515635 GN=pdxS PE=3 SV=1 |
| B0K4N7 | Pyridoxal 5'-phosphate synthase subunit PdxS OS=Thermoanaerobacter sp. (strain X514) OX=399726 GN=pdxS PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0006294 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01680 all species → | SOR_SNZ | SOR/SNZ family | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001852 all species → | Family | Pyridoxal 5'-phosphate synthase subunit PdxS/SNZ | Interproscan |
| IPR011060 all species → | Homologous_superfamily | Ribulose-phosphate binding barrel | Interproscan |
| IPR013785 all species → | Homologous_superfamily | Aldolase-type TIM barrel | Interproscan |
| IPR033755 all species → | Domain | PdxS/SNZ N-terminal domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR31829 all species → | PYRIDOXAL 5'-PHOSPHATE SYNTHASE SUBUNIT SNZ1-RELATED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0042819 all species → | Biological Process | vitamin B6 biosynthetic process | Interproscan |
| GO:0042823 all species → | Biological Process | pyridoxal phosphate biosynthetic process | Interproscan |
| GO:0006520 all species → | Biological Process | amino acid metabolic process | Interproscan |
| GO:0008615 all species → | Biological Process | pyridoxine biosynthetic process | Interproscan |
| GO:0016843 all species → | Molecular Function | amine-lyase activity | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K06215 | pdxS, pdx1; pyridoxal 5'-phosphate synthase pdxS subunit | EC:4.3.3.6 | Vitamin B6 metabolism | ko00750 | deepkoala |
Genes whose expression across the transcriptome samples of Hemicorallium imperiale 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 Hemicorallium imperiale, 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. | not in the sequence table | 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. | not in the sequence table | 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 → |
