Genomic Location: QPEY01000095.1:470276...495418
NR annotation: XP_047130799.1, 26S proteasome non-ATPase regulatory subunit 1 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families
| CDS |
| BRAKERKRET00000015558 |
| Transcript |
| BRAKERKRET00000015558 |
| Protein |
| BRAKERKREP00000015558.1 |
| UniProt accession | Description |
|---|---|
| Q99460 | 26S proteasome non-ATPase regulatory subunit 1 OS=Homo sapiens OX=9606 GN=PSMD1 PE=1 SV=2 |
| Q5R5S4 | 26S proteasome non-ATPase regulatory subunit 1 OS=Pongo abelii OX=9601 GN=PSMD1 PE=2 SV=1 |
| O88761 | 26S proteasome non-ATPase regulatory subunit 1 OS=Rattus norvegicus OX=10116 GN=Psmd1 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004500 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF13646 all species → | HEAT_2 | HEAT repeats | Repeat | Interproscan |
| PF18004 all species → | RPN2_C | 26S proteasome regulatory subunit RPN2 C-terminal domain | Domain | Interproscan |
| PF01851 all species → | PC_rep | Proteasome/cyclosome repeat | Repeat | Interproscan |
| PF21505 all species → | RPN2_N | 26S proteasome subunit RPN2, N-terminal domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR040623 all species → | Domain | 26S proteasome regulatory subunit RPN2, C-terminal | Interproscan |
| IPR011989 all species → | Homologous_superfamily | Armadillo-like helical | Interproscan |
| IPR002015 all species → | Repeat | Proteasome/cyclosome repeat | Interproscan |
| IPR016024 all species → | Homologous_superfamily | Armadillo-type fold | Interproscan |
| IPR016642 all species → | Family | 26S proteasome regulatory complex, non-ATPase subcomplex, Rpn2/Psmd1 subunit | Interproscan |
| IPR048570 all species → | Domain | 26S proteasome non-ATPase regulatory subunit 1/RPN2, N-terminal domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10943 all species → | 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0008540 all species → | Cellular Component | proteasome regulatory particle, base subcomplex | Interproscan |
| GO:0034515 all species → | Cellular Component | proteasome storage granule | Interproscan |
| GO:0043161 all species → | Biological Process | proteasome-mediated ubiquitin-dependent protein catabolic process | Interproscan |
| GO:0000502 all species → | Cellular Component | proteasome complex | Interproscan |
| GO:0030234 all species → | Molecular Function | enzyme regulator activity | Interproscan |
| GO:0042176 all species → | Biological Process | regulation of protein catabolic process | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03032 | PSMD1, RPN2; 26S proteasome regulatory subunit N2 | - | Proteasome | ko03051 | deepkoala |
Transcript abundance of BRAKERKREP00000015558.1 across 29 RNA-seq samples of Hydra viridissima. 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 body | 18 | 0 | 0.00 | 0.00 | |
| Whole | 6 | 5 | 0.47 | 0.81 | |
| aposymbioic hydra M9 strain · aposymbioic hydra rep1 | 1 | 0 | 0.00 | 0.00 | |
| aposymbioic hydra M9 strain · aposymbioic hydra rep2 | 1 | 0 | 0.00 | 0.00 | |
| symbioic hydra M9 strain · symbioic hydra rep1 | 1 | 0 | 0.00 | 0.00 | |
| symbioic hydra M9 strain · symbioic hydra rep2 | 1 | 0 | 0.00 | 0.00 | |
| unannotated | 1 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR21134050 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134051 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134052 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134053 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134054 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134055 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134056 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134057 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134058 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134059 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134060 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134061 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134062 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134063 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134064 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134065 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134066 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR21134067 | whole body | whole body | not recorded | not recorded | SRP392977 | 0.00 |
| SRR10058806 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.81 |
| SRR10058807 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.71 |
| SRR10058803 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.70 |
| SRR10058804 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.47 |
| SRR10058805 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.16 |
| SRR10058802 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.00 |
| DRR048593 | aposymbioic hydra M9 strain · aposymbioic hydra rep1 | not recorded | not recorded | aposymbioic hydra rep1 | DRP003902 | 0.00 |
| DRR048594 | aposymbioic hydra M9 strain · aposymbioic hydra rep2 | not recorded | not recorded | aposymbioic hydra rep2 | DRP003902 | 0.00 |
| DRR048595 | symbioic hydra M9 strain · symbioic hydra rep1 | not recorded | not recorded | symbioic hydra rep1 | DRP003902 | 0.00 |
| DRR048596 | symbioic hydra M9 strain · symbioic hydra rep2 | not recorded | not recorded | symbioic hydra rep2 | DRP003902 | 0.00 |
| ERR13389755 | unannotated | not recorded | not recorded | not recorded | ERP162636 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM,
StringTie quantification over 29 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 Hydra viridissima 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 | BRAKERKREP00000009937.1 | 0.991794537767889 |
| Negatively correlated | 4 | g7763 | -0.487344517534954 |
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 Hydra viridissima, 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 → |
