Genomic Location: not available for this species
NR annotation: WP_170327776.1, bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase [Ruegeria arenilitoris]
Species Cassiopea xamachana · all data for this species · gene families
| UniProt accession | Description |
|---|---|
| Q5LWT9 | Formamidopyrimidine-DNA glycosylase OS=Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) OX=246200 GN=mutM PE=3 SV=3 |
| Q1GC55 | Formamidopyrimidine-DNA glycosylase OS=Ruegeria sp. (strain TM1040) OX=292414 GN=mutM PE=3 SV=1 |
| Q16DL0 | Formamidopyrimidine-DNA glycosylase OS=Roseobacter denitrificans (strain ATCC 33942 / OCh 114) OX=375451 GN=mutM PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0021999 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF06831 all species → | H2TH | Formamidopyrimidine-DNA glycosylase H2TH domain | Domain | Interproscan |
| PF06827 all species → | zf-FPG_IleRS | Zinc finger found in FPG and IleRS | Domain | Interproscan |
| PF01149 all species → | Fapy_DNA_glyco | Formamidopyrimidine-DNA glycosylase N-terminal domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR015886 all species → | Domain | DNA glycosylase/AP lyase, H2TH DNA-binding | Interproscan |
| IPR020629 all species → | Family | Formamidopyrimidine-DNA glycosylase | Interproscan |
| IPR012319 all species → | Domain | Formamidopyrimidine-DNA glycosylase, catalytic domain | Interproscan |
| IPR035937 all species → | Homologous_superfamily | MutM-like, N-terminal | Interproscan |
| IPR000214 all species → | Domain | Zinc finger, DNA glycosylase/AP lyase-type | Interproscan |
| IPR010663 all species → | Domain | Zinc finger, FPG/IleRS-type | Interproscan |
| IPR010979 all species → | Homologous_superfamily | Small ribosomal subunit protein uS13-like, H2TH | Interproscan |
| IPR015887 all species → | Binding_site | DNA glycosylase/AP lyase, zinc finger domain, DNA-binding site | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR22993 all species → | FORMAMIDOPYRIMIDINE-DNA GLYCOSYLASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003684 all species → | Molecular Function | damaged DNA binding | Interproscan |
| GO:0003906 all species → | Molecular Function | DNA-(apurinic or apyrimidinic site) endonuclease activity | Interproscan |
| GO:0006284 all species → | Biological Process | base-excision repair | Interproscan |
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| GO:0016799 all species → | Molecular Function | hydrolase activity, hydrolyzing N-glycosyl compounds | Interproscan |
| GO:0006281 all species → | Biological Process | DNA repair | Interproscan |
| GO:0008534 all species → | Molecular Function | oxidized purine nucleobase lesion DNA N-glycosylase activity | Interproscan |
| GO:0019104 all species → | Molecular Function | DNA N-glycosylase activity | Interproscan |
| GO:0034039 all species → | Molecular Function | 8-oxo-7,8-dihydroguanine DNA N-glycosylase activity | Interproscan |
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K10563 | mutM, fpg; formamidopyrimidine-DNA glycosylase | EC:3.2.2.23 EC:4.2.99.18 | DNA repair and recombination proteins | ko03400 | deepkoala |
Genes whose expression across the transcriptome samples of Cassiopea xamachana 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 Cassiopea xamachana, 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. | sequence table not available | – |
| 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. | sequence table not available | – |
| 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 → |
