Genomic Location: HOLI00001:4243034...4244159
NR annotation: TRZ03252.1, hypothetical protein DNTS_011983 [Danionella translucida]
Species Hydra oligactis · all data for this species · gene families
| CDS |
| HOLI00001.g52350.t1 |
| Transcript |
| HOLI00001.g52350.t1 |
| Protein |
| HOLI00001.G52350 |
| UniProt accession | Description |
|---|---|
| B1JE12 | Large ribosomal subunit protein uL1 OS=Pseudomonas putida (strain W619) OX=390235 GN=rplA PE=3 SV=1 |
| Q1IFX6 | Large ribosomal subunit protein uL1 OS=Pseudomonas entomophila (strain L48) OX=384676 GN=rplA PE=3 SV=1 |
| C3K2Y6 | Large ribosomal subunit protein uL1 OS=Pseudomonas fluorescens (strain SBW25) OX=216595 GN=rplA PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004413 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF03946 all species → | Ribosomal_L11_N | Ribosomal protein L11, N-terminal domain | Domain | Interproscan |
| PF00298 all species → | Ribosomal_L11 | Ribosomal protein L11, RNA binding domain | Domain | Interproscan |
| PF00687 all species → | Ribosomal_L1 | Ribosomal protein L1p/L10e family | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR020784 all species → | Domain | Large ribosomal subunit protein uL11, N-terminal | Interproscan |
| IPR000911 all species → | Family | Ribosomal protein uL11 | Interproscan |
| IPR036769 all species → | Homologous_superfamily | Large ribosomal subunit protein uL11, C-terminal domain superfamily | Interproscan |
| IPR028364 all species → | Family | Ribosomal protein uL1/ribosomal biogenesis protein | Interproscan |
| IPR023673 all species → | Conserved_site | Large ribosomal subunit protein uL1, conserved site | Interproscan |
| IPR006519 all species → | Family | Large ribosomal subunit protein uL11, bacterial-type | Interproscan |
| IPR020783 all species → | Domain | Large ribosomal subunit protein uL11, C-terminal | Interproscan |
| IPR036796 all species → | Homologous_superfamily | Large ribosomal subunit protein uL11, N-terminal domain superfamily | Interproscan |
| IPR005878 all species → | Family | Large ribosomal subunit protein uL1, bacterial-type | Interproscan |
| IPR016095 all species → | Homologous_superfamily | Large ribosomal subunit protein uL1, 3-layer alpha/beta-sandwich domain | Interproscan |
| IPR020785 all species → | Conserved_site | Large ribosomal subunit protein uL11, conserved site | Interproscan |
| IPR023674 all species → | Homologous_superfamily | Ribosomal protein uL1-like | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR36427 all species → | 54S RIBOSOMAL PROTEIN L1, MITOCHONDRIAL | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| 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 |
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0015934 all species → | Cellular Component | large ribosomal subunit | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K02863 | RP-L1, MRPL1, rplA; large subunit ribosomal protein L1 | - | Ribosome | ko03011 | 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 → |
