Genomic Location: HOLI00002:3377749...3379626
NR annotation: MCD6018828.1, mrdA [Bacteroidota bacterium]
Species Hydra oligactis · all data for this species · gene families
| CDS |
| HOLI00002.g20117.t1 |
| Transcript |
| HOLI00002.g20117.t1 |
| Protein |
| HOLI00002.G20117 |
| UniProt accession | Description |
|---|---|
| D0C8Z9 | Peptidoglycan D,D-transpeptidase MrdA OS=Acinetobacter baumannii (strain ATCC 19606 / DSM 30007 / JCM 6841 / CCUG 19606 / CIP 70.34 / NBRC 109757 / NCIMB 12457 / NCTC 12156 / 81) OX=575584 GN=mrdA PE=1 SV=1 |
| P0AD67 | Peptidoglycan D,D-transpeptidase MrdA OS=Escherichia coli O157:H7 OX=83334 GN=mrdA PE=3 SV=1 |
| P0AD66 | Peptidoglycan D,D-transpeptidase MrdA OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) OX=199310 GN=mrdA PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0013938 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00905 all species → | Transpeptidase | Penicillin binding protein transpeptidase domain | Domain | Interproscan |
| PF03717 all species → | PBP_dimer | Penicillin-binding Protein dimerisation domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR036138 all species → | Homologous_superfamily | Penicillin-binding protein, dimerisation domain superfamily | Interproscan |
| IPR050515 all species → | Family | Bacterial Transpeptidases and Beta-Lactamases | Interproscan |
| IPR001460 all species → | Domain | Penicillin-binding protein, transpeptidase | Interproscan |
| IPR005311 all species → | Domain | Penicillin-binding protein, dimerisation domain | Interproscan |
| IPR012338 all species → | Homologous_superfamily | Beta-lactamase/transpeptidase-like | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR30627 all species → | PEPTIDOGLYCAN D,D-TRANSPEPTIDASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0008658 all species → | Molecular Function | penicillin binding | Interproscan |
| GO:0005887 all species → | Cellular Component | plasma membrane | Interproscan |
| GO:0071555 all species → | Biological Process | cell wall organization | Interproscan |
| GO:0071972 all species → | Molecular Function | peptidoglycan L,D-transpeptidase activity | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K05515 | mrdA; penicillin-binding protein 2 | EC:3.4.16.4 | Peptidoglycan biosynthesis and degradation proteins | ko01011 | deepkoala |
Genes whose expression across the transcriptome samples of Hydra oligactis 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 Hydra oligactis, 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 → |
