Genomic Location: chr3:5097893...5118032
NR annotation: XP_029197854.2, glutamate-rich WD repeat-containing protein 1-like [Acropora millepora]
Species Aurelia coerulea · all data for this species · gene families
| CDS |
| evm.model.ptg000006l.278 |
| Transcript |
| evm.model.ptg000006l.278 |
| Protein |
| evm.model.ptg000006l.278 |
| UniProt accession | Description |
|---|---|
| Q1JQD2 | Glutamate-rich WD repeat-containing protein 1 OS=Bos taurus OX=9913 GN=GRWD1 PE=2 SV=1 |
| Q810D6 | Glutamate-rich WD repeat-containing protein 1 OS=Mus musculus OX=10090 GN=Grwd1 PE=1 SV=2 |
| Q5XI13 | Glutamate-rich WD repeat-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Grwd1 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004425 (this species only) · gene tree & orthology |
| Ubiquitin family | UBD|Other|Beta-prp · all ubiquitin genes in this species |
| Ubiquitin family | E3|E3 adaptor Cullin RING|CDC20 · all ubiquitin genes in this species |
| Ubiquitin family | E3|E3 adaptor Cullin RING|DWD · all ubiquitin genes in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF12265 all species → | CAF1C_H4-bd | Histone-binding protein RBBP4 or subunit C of CAF1 complex | Repeat | Interproscan |
| PF00400 all species → | WD40 | WD domain, G-beta repeat | Repeat | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR019775 all species → | Conserved_site | WD40 repeat, conserved site | Interproscan |
| IPR015943 all species → | Homologous_superfamily | WD40/YVTN repeat-like-containing domain superfamily | Interproscan |
| IPR022052 all species → | Domain | Histone-binding protein RBBP4, N-terminal | Interproscan |
| IPR001680 all species → | Repeat | WD40 repeat | Interproscan |
| IPR036322 all species → | Homologous_superfamily | WD40-repeat-containing domain superfamily | Interproscan |
| IPR020472 all species → | Repeat | G-protein beta WD-40 repeat | Interproscan |
| IPR051972 all species → | Family | Glutamate-rich WD repeat-containing | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR45903 all species → | GLUTAMATE-RICH WD REPEAT-CONTAINING PROTEIN 1 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005515 all species → | Molecular Function | protein binding | Interproscan |
| GO:0005730 all species → | Cellular Component | nucleolus | Interproscan |
| GO:0042254 all species → | Biological Process | ribosome biogenesis | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K14848 | RRB1, GRWD1; ribosome assembly protein RRB1 | - | Ribosome biogenesis | ko03009 | deepkoala |
Transcript abundance of evm.model.ptg000006l.278 across 30 RNA-seq samples of Aurelia coerulea. 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.
Every sample in this dataset carries its own condition — the source metadata gives each run a distinct treatment label — so this table is effectively a sample list. The per-sample chart below is the informative view here.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| whole organism · T_A1ES | 1 | 1 | 8.14 | 8.14 | |
| whole organism · T_C3E | 1 | 1 | 9.86 | 9.86 | |
| whole organism · T_C2P | 1 | 1 | 9.91 | 9.91 | |
| whole organism · T_A2ES | 1 | 1 | 15.43 | 15.43 | |
| whole organism · T_A3ES | 1 | 1 | 12.94 | 12.94 | |
| whole organism · T_C1AS | 1 | 1 | 11.49 | 11.49 | |
| whole organism · T_C2AS | 1 | 1 | 11.68 | 11.68 | |
| whole organism · T_C3AS | 1 | 1 | 9.01 | 9.01 | |
| whole organism · T_A1AS | 1 | 1 | 30.79 | 30.79 | |
| whole organism · T_A2AS | 1 | 1 | 21.45 | 21.45 | |
| whole organism · T_A3AS | 1 | 1 | 29.36 | 29.36 | |
| whole organism · T_C1E | 1 | 1 | 14.33 | 14.33 | |
| whole organism · T_C2E | 1 | 1 | 12.62 | 12.62 | |
| whole organism · T_C3P | 1 | 1 | 6.22 | 6.22 | |
| whole organism · T_AE1 | 1 | 1 | 24.29 | 24.29 | |
| whole organism · T_C3ES | 1 | 1 | 14.43 | 14.43 | |
| whole organism · T_AE2 | 1 | 1 | 20.21 | 20.21 | |
| whole organism · T_AE3 | 1 | 1 | 19.70 | 19.70 | |
| whole organism · T_AES1 | 1 | 1 | 40.24 | 40.24 | |
| whole organism · T_AES2 | 1 | 1 | 36.89 | 36.89 | |
| whole organism · T_AES3 | 1 | 1 | 31.81 | 31.81 | |
| whole organism · T_AAS1 | 1 | 1 | 22.67 | 22.67 | |
| whole organism · T_AAS2 | 1 | 1 | 13.34 | 13.34 | |
| whole organism · T_AAS3 | 1 | 1 | 13.29 | 13.29 | |
| whole organism · T_A1P | 1 | 1 | 5.21 | 5.21 | |
| whole organism · T_A2P | 1 | 1 | 6.39 | 6.39 | |
| whole organism · T_A3P | 1 | 1 | 4.19 | 4.19 | |
| whole organism · T_C1ES | 1 | 1 | 12.93 | 12.93 | |
| whole organism · T_C2ES | 1 | 1 | 19.08 | 19.08 | |
| whole organism · T_C1P | 1 | 1 | 5.60 | 5.60 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR25982246 | whole organism · T_A1ES | whole organism | not recorded | T_A1ES | SRP459341 | 8.14 |
| SRR25982262 | whole organism · T_C3E | whole organism | not recorded | T_C3E | SRP459341 | 9.86 |
| SRR25982274 | whole organism · T_C2P | whole organism | not recorded | T_C2P | SRP459341 | 9.91 |
| SRR25982273 | whole organism · T_A2ES | whole organism | not recorded | T_A2ES | SRP459341 | 15.43 |
| SRR25982272 | whole organism · T_A3ES | whole organism | not recorded | T_A3ES | SRP459341 | 12.94 |
| SRR25982271 | whole organism · T_C1AS | whole organism | not recorded | T_C1AS | SRP459341 | 11.49 |
| SRR25982270 | whole organism · T_C2AS | whole organism | not recorded | T_C2AS | SRP459341 | 11.68 |
| SRR25982269 | whole organism · T_C3AS | whole organism | not recorded | T_C3AS | SRP459341 | 9.01 |
| SRR25982268 | whole organism · T_A1AS | whole organism | not recorded | T_A1AS | SRP459341 | 30.79 |
| SRR25982267 | whole organism · T_A2AS | whole organism | not recorded | T_A2AS | SRP459341 | 21.45 |
| SRR25982266 | whole organism · T_A3AS | whole organism | not recorded | T_A3AS | SRP459341 | 29.36 |
| SRR25982265 | whole organism · T_C1E | whole organism | not recorded | T_C1E | SRP459341 | 14.33 |
| SRR25982264 | whole organism · T_C2E | whole organism | not recorded | T_C2E | SRP459341 | 12.62 |
| SRR25982263 | whole organism · T_C3P | whole organism | not recorded | T_C3P | SRP459341 | 6.22 |
| SRR25982261 | whole organism · T_AE1 | whole organism | not recorded | T_AE1 | SRP459341 | 24.29 |
| SRR25982247 | whole organism · T_C3ES | whole organism | not recorded | T_C3ES | SRP459341 | 14.43 |
| SRR25982260 | whole organism · T_AE2 | whole organism | not recorded | T_AE2 | SRP459341 | 20.21 |
| SRR25982259 | whole organism · T_AE3 | whole organism | not recorded | T_AE3 | SRP459341 | 19.70 |
| SRR25982258 | whole organism · T_AES1 | whole organism | not recorded | T_AES1 | SRP459341 | 40.24 |
| SRR25982257 | whole organism · T_AES2 | whole organism | not recorded | T_AES2 | SRP459341 | 36.89 |
| SRR25982256 | whole organism · T_AES3 | whole organism | not recorded | T_AES3 | SRP459341 | 31.81 |
| SRR25982255 | whole organism · T_AAS1 | whole organism | not recorded | T_AAS1 | SRP459341 | 22.67 |
| SRR25982254 | whole organism · T_AAS2 | whole organism | not recorded | T_AAS2 | SRP459341 | 13.34 |
| SRR25982253 | whole organism · T_AAS3 | whole organism | not recorded | T_AAS3 | SRP459341 | 13.29 |
| SRR25982252 | whole organism · T_A1P | whole organism | not recorded | T_A1P | SRP459341 | 5.21 |
| SRR25982251 | whole organism · T_A2P | whole organism | not recorded | T_A2P | SRP459341 | 6.39 |
| SRR25982250 | whole organism · T_A3P | whole organism | not recorded | T_A3P | SRP459341 | 4.19 |
| SRR25982249 | whole organism · T_C1ES | whole organism | not recorded | T_C1ES | SRP459341 | 12.93 |
| SRR25982248 | whole organism · T_C2ES | whole organism | not recorded | T_C2ES | SRP459341 | 19.08 |
| SRR25982275 | whole organism · T_C1P | whole organism | not recorded | T_C1P | SRP459341 | 5.60 |
Source: CnidoSite RNA-seq expression matrices (ACOER_TPM,
StringTie quantification over 30 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 Aurelia coerulea 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 | 25 | evm.model.ptg000018l.329 | 0.971738945612823 |
| Negatively correlated | 4 | evm.model.ptg000035l.510 | -0.848662693686546 |
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 Aurelia coerulea, 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 → |
