Genomic Location: ScUbCFx_409:4848260...4886747
NR annotation: no NCBI-NR hit recorded
Species Rhopilema esculentum · all data for this species · gene families
| CDS |
| LOC135688715 |
| Transcript |
| rna-XM_065205676.1 |
| Protein |
| XP_065061748.1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0002012 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF02784 all species → | Orn_Arg_deC_N | Pyridoxal-dependent decarboxylase, pyridoxal binding domain | Domain | Interproscan |
| PF00278 all species → | Orn_DAP_Arg_deC | Pyridoxal-dependent decarboxylase, C-terminal sheet domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR022644 all species → | Domain | Orn/DAP/Arg decarboxylase 2, N-terminal | Interproscan |
| IPR009006 all species → | Homologous_superfamily | Alanine racemase/group IV decarboxylase, C-terminal | Interproscan |
| IPR002433 all species → | Family | Ornithine decarboxylase | Interproscan |
| IPR000183 all species → | Family | Ornithine/DAP/Arg decarboxylase | Interproscan |
| IPR022653 all species → | Binding_site | Orn/DAP/Arg decarboxylase 2, pyridoxal-phosphate binding site | Interproscan |
| IPR029066 all species → | Homologous_superfamily | PLP-binding barrel | Interproscan |
| IPR022643 all species → | Domain | Orn/DAP/Arg decarboxylase 2, C-terminal | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11482 all species → | ARGININE/DIAMINOPIMELATE/ORNITHINE DECARBOXYLASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003824 all species → | Molecular Function | catalytic activity | Interproscan |
| GO:0006596 all species → | Biological Process | polyamine biosynthetic process | Interproscan |
| GO:0004586 all species → | Molecular Function | ornithine decarboxylase activity | Interproscan |
| GO:0005737 all species → | Cellular Component | cytoplasm | Interproscan |
| GO:0033387 all species → | Biological Process | putrescine biosynthetic process from ornithine | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K01581 | E4.1.1.17, ODC1, speC, speF; ornithine decarboxylase | EC:4.1.1.17 | Efferocytosis | ko04148 | deepkoala |
Genes whose expression across the transcriptome samples of Rhopilema esculentum 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 Rhopilema esculentum, 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 → |
