Genomic Location: NW_022261050.1:169852...172983
NR annotation: XP_031562005.1, 60S ribosomal protein L13-like [Actinia tenebrosa]
Species Actinia tenebrosa · all data for this species · gene families
| CDS |
| XP_031562005.1 |
| Protein |
| XP_031562005.1 |
| UniProt accession | Description |
|---|---|
| Q90Z10 | Large ribosomal subunit protein eL13 OS=Danio rerio OX=7955 GN=rpl13 PE=1 SV=3 |
| Q90YV5 | Large ribosomal subunit protein eL13 OS=Ictalurus punctatus OX=7998 GN=rpl13 PE=2 SV=3 |
| P26373 | Large ribosomal subunit protein eL13 OS=Homo sapiens OX=9606 GN=RPL13 PE=1 SV=4 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0007497 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01294 all species → | Ribosomal_L13e | Ribosomal protein L13e | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001380 all species → | Family | Large ribosomal subunit protein eL13 | Interproscan |
| IPR018256 all species → | Conserved_site | Large ribosomal subunit protein eL13, conserved site | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11722 all species → | 60S RIBOSOMAL PROTEIN L13 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0003735 all species → | Molecular Function | structural constituent of ribosome | Interproscan |
| GO:0005840 all species → | Cellular Component | ribosome | Interproscan |
| GO:0006412 all species → | Biological Process | translation | Interproscan |
| GO:0022625 all species → | Cellular Component | cytosolic large ribosomal subunit | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K02873 | RP-L13e, RPL13; large subunit ribosomal protein L13e | - | Ribosome | ko03011 | deepkoala |
Transcript abundance of XP_031562005.1 across 18 RNA-seq samples of Actinia tenebrosa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| whole organism | 5 | 5 | 5,361.78 | 10,458.22 | |
| Tentacle | 4 | 4 | 4,465.19 | 6,314.89 | |
| Mesentery | 3 | 3 | 3,214.71 | 3,329.84 | |
| Acrorhagi | 3 | 3 | 5,084.89 | 5,523.26 | |
| whole | 2 | 2 | 6,970.37 | 6,976.41 | |
| whole organisim | 1 | 1 | 2,761.12 | 2,761.12 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR3193648 | whole organism | whole organism | not recorded | not recorded | SRP070917 | 10,458.22 |
| SRR2437124 | whole organism | whole organism | not recorded | not recorded | SRP063756 | 5,790.19 |
| SRR4696535 | whole organism | Whole Organism | not recorded | not recorded | SRP092287 | 4,355.37 |
| SRR3210696 | whole organism | whole organism | not recorded | not recorded | SRP070917 | 3,262.64 |
| SRR3206038 | whole organism | whole organism | not recorded | not recorded | SRP070917 | 2,942.48 |
| SRR6282389 | Tentacle | Tentacles | not recorded | not recorded | SRP124815 | 6,314.89 |
| SRR4677502 | Tentacle | Tentacle | not recorded | not recorded | SRP092287 | 4,426.90 |
| SRR4677495 | Tentacle | Tentacle | not recorded | not recorded | SRP092287 | 3,876.67 |
| SRR4677522 | Tentacle | Tentacle | not recorded | not recorded | SRP092287 | 3,242.28 |
| SRR4677518 | Mesentery | Mesentery | not recorded | not recorded | SRP092287 | 3,329.84 |
| SRR4677488 | Mesentery | Mesentery | not recorded | not recorded | SRP092287 | 3,277.32 |
| SRR4677492 | Mesentery | Mesentery | not recorded | not recorded | SRP092287 | 3,036.95 |
| SRR4677512 | Acrorhagi | Acrorhagi | not recorded | not recorded | SRP092287 | 5,523.26 |
| SRR4677507 | Acrorhagi | Acrorhagi | not recorded | not recorded | SRP092287 | 5,110.88 |
| SRR4677515 | Acrorhagi | Acrorhagi | not recorded | not recorded | SRP092287 | 4,620.53 |
| SRR3193284 | whole | whole | not recorded | not recorded | SRP070917 | 6,976.41 |
| SRR3216075 | whole | whole | not recorded | not recorded | SRP070917 | 6,964.33 |
| SRR3207346 | whole organisim | whole organisim | not recorded | not recorded | SRP070917 | 2,761.12 |
Source: CnidoSite RNA-seq expression matrices (ATENE_TPM,
StringTie quantification over 18 runs), joined to SRA sample
metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped
by the descriptor carried in the expression matrix itself.
Genes whose expression across the transcriptome samples of Actinia tenebrosa 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.
| Direction | Partners | Most correlated partner | PCC |
|---|---|---|---|
| Positively correlated | 19 | XP_031557709.1 | 0.968254830753434 |
| Negatively correlated | 62 | XP_031572219.1 | -0.784731530121693 |
Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.
Whether this gene can be visualised in the single-cell atlases of Actinia tenebrosa, 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. | ready | open → |
| 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 → |
