Genomic Location: HOLI00001:4225554...4226800
NR annotation: VVN41378.1, 30S ribosomal protein S19 [Pseudomonas fluorescens]
Species Hydra oligactis · all data for this species · gene families
| CDS |
| HOLI00001.g52338.t1 |
| Transcript |
| HOLI00001.g52338.t1 |
| Protein |
| HOLI00001.G52338 |
| UniProt accession | Description |
|---|---|
| A5VXQ0 | Large ribosomal subunit protein uL2 OS=Pseudomonas putida (strain ATCC 700007 / DSM 6899 / JCM 31910 / BCRC 17059 / LMG 24140 / F1) OX=351746 GN=rplB PE=3 SV=1 |
| Q88QN2 | Large ribosomal subunit protein uL2 OS=Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440) OX=160488 GN=rplB PE=3 SV=1 |
| B1JDW1 | Large ribosomal subunit protein uL2 OS=Pseudomonas putida (strain W619) OX=390235 GN=rplB PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0008806 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00181 all species → | Ribosomal_L2 | Ribosomal Proteins L2, RNA binding domain | Domain | Interproscan |
| PF03947 all species → | Ribosomal_L2_C | Ribosomal Proteins L2, C-terminal domain | Domain | Interproscan |
| PF00203 all species → | Ribosomal_S19 | Ribosomal protein S19 | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR022666 all species → | Domain | Large ribosomal subunit protein uL2, RNA-binding domain | Interproscan |
| IPR014722 all species → | Homologous_superfamily | Large ribosomal subunit protein uL2, domain 2 | Interproscan |
| IPR005880 all species → | Family | Large ribosomal subunit protein uL2, bacterial/organellar-type | Interproscan |
| IPR022669 all species → | Domain | Large ribosomal subunit protein uL2, C-terminal | Interproscan |
| IPR002171 all species → | Family | Large ribosomal subunit protein uL2 | Interproscan |
| IPR022671 all species → | Conserved_site | Large ribosomal subunit protein uL2, conserved site | Interproscan |
| IPR002222 all species → | Family | Small ribosomal subunit protein uS19 | Interproscan |
| IPR023575 all species → | Homologous_superfamily | Small ribosomal subunit protein uS19, superfamily | Interproscan |
| IPR005732 all species → | Family | Small ribosomal subunit protein uS19, bacterial-type | Interproscan |
| IPR012340 all species → | Homologous_superfamily | Nucleic acid-binding, OB-fold | Interproscan |
| IPR014726 all species → | Homologous_superfamily | Large ribosomal subunit protein uL2, domain 3 | Interproscan |
| IPR020934 all species → | Conserved_site | Small ribosomal subunit protein uS19, conserved site | Interproscan |
| IPR008991 all species → | Homologous_superfamily | Translation protein SH3-like domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR13691 all species → | RIBOSOMAL PROTEIN L2 | 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:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0015934 all species → | Cellular Component | large ribosomal subunit | Interproscan |
| GO:0016740 all species → | Molecular Function | transferase activity | Interproscan |
| GO:0015935 all species → | Cellular Component | small ribosomal subunit | Interproscan |
| GO:0002181 all species → | Biological Process | cytoplasmic translation | Interproscan |
| GO:0022625 all species → | Cellular Component | cytosolic large ribosomal subunit | Interproscan |
HOLI00001.G52338.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 → |
