Genomic Location: scaffold978:18453...49684
NR annotation: no NCBI-NR hit recorded
Species Aurelia aurita complex sp. Pacific · all data for this species · gene families
| CDS |
| scaffold978.g2.t3 |
| Transcript |
| scaffold978.g2.t3 |
| Protein |
| scaffold978.g2.t3 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0003952 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF13920 all species → | zf-C3HC4_3 | Zinc finger, C3HC4 type (RING finger) | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR013083 all species → | Homologous_superfamily | Zinc finger, RING/FYVE/PHD-type | Interproscan |
| IPR001841 all species → | Domain | Zinc finger, RING-type | Interproscan |
| IPR051728 all species → | Family | RING-FYVE domain-containing E3 ubiquitin-protein ligase | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR14879 all species → | CASPASE REGULATOR, RING FINGER DOMAIN-CONTAINING | Interproscan |
scaffold978.g2.t3 in Aurelia aurita complex sp. Pacific.scaffold978.g2.t3.Transcript abundance of scaffold978.g2.t3 across 29 RNA-seq samples of Aurelia aurita complex sp. Pacific. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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 |
|---|---|---|---|---|---|
| jellyfish mesoglea cells | 2 | 0 | 0.00 | 0.00 | |
| complete polyp induced 20h | 1 | 0 | 0.00 | 0.00 | |
| jellyfish canal system endoderm | 1 | 0 | 0.00 | 0.00 | |
| mesoglea cells | 1 | 0 | 0.00 | 0.00 | |
| bell edge (ectoderm and canal) | 1 | 0 | 0.00 | 0.00 | |
| tentacles (distal part) | 1 | 0 | 0.00 | 0.00 | |
| planula complete | 1 | 0 | 0.00 | 0.00 | |
| male gonad | 1 | 0 | 0.00 | 0.00 | |
| jellyfish ectoderm (upper bell surface) | 1 | 0 | 0.00 | 0.00 | |
| jellyfish ectoderm (muscle layer) | 1 | 0 | 0.00 | 0.00 | |
| complete juvenile jellyfish ~1cm in diameter | 1 | 0 | 0.00 | 0.00 | |
| strobila foot | 1 | 0 | 0.00 | 0.00 | |
| jellyfish ectoderm from the upper side of the bell | 1 | 0 | 0.00 | 0.00 | |
| complete juvenile jellyfish ~2.5cm in diameter | 1 | 0 | 0.00 | 0.00 | |
| jellyfish striated muscle layer | 1 | 0 | 0.00 | 0.00 | |
| strobila head | 1 | 0 | 0.00 | 0.00 | |
| jellyfish gastric filaments | 1 | 0 | 0.00 | 0.00 | |
| jellyfish bell edge | 1 | 0 | 0.00 | 0.00 | |
| jellyfish oral arm | 1 | 0 | 0.00 | 0.00 | |
| jellyfish bell middle part | 1 | 0 | 0.00 | 0.00 | |
| polyp ectoderm from body column | 1 | 0 | 0.00 | 0.00 | |
| polyp head region | 1 | 0 | 0.00 | 0.00 | |
| polyp endoderm from body column | 1 | 0 | 0.00 | 0.00 | |
| strobila non-segmented part | 1 | 0 | 0.00 | 0.00 | |
| strobila segments | 1 | 0 | 0.00 | 0.00 | |
| complete polyp induced 12h | 1 | 0 | 0.00 | 0.00 | |
| complete polyp not induced | 1 | 0 | 0.00 | 0.00 | |
| endoderm (canal system) | 1 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR8040400 | jellyfish mesoglea cells | jellyfish mesoglea cells | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040405 | jellyfish mesoglea cells | jellyfish mesoglea cells | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040387 | complete polyp induced 20h | complete polyp induced 20h | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040407 | jellyfish canal system endoderm | jellyfish canal system endoderm | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089704 | mesoglea cells | mesoglea cells | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089703 | bell edge (ectoderm and canal) | bell edge (ectoderm and canal) | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089702 | tentacles (distal part) | tentacles (distal part) | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089701 | planula complete | planula complete | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089700 | male gonad | male gonad | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089699 | jellyfish ectoderm (upper bell surface) | jellyfish ectoderm (upper bell surface) | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089698 | jellyfish ectoderm (muscle layer) | jellyfish ectoderm (muscle layer) | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040411 | complete juvenile jellyfish ~1cm in diameter | complete juvenile jellyfish ~1cm in diameter | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040410 | strobila foot | strobila foot | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040409 | jellyfish ectoderm from the upper side of the bell | jellyfish ectoderm from the upper side of the bell | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040408 | complete juvenile jellyfish ~2.5cm in diameter | complete juvenile jellyfish ~2.5cm in diameter | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040406 | jellyfish striated muscle layer | jellyfish striated muscle layer | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040388 | strobila head | strobila head | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040404 | jellyfish gastric filaments | jellyfish gastric filaments | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040403 | jellyfish bell edge | jellyfish bell edge | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040402 | jellyfish oral arm | jellyfish oral arm | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040401 | jellyfish bell middle part | jellyfish bell middle part | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040399 | polyp ectoderm from body column | polyp ectoderm from body column | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040398 | polyp head region | polyp head region | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040397 | polyp endoderm from body column | polyp endoderm from body column | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040396 | strobila non-segmented part | strobila non-segmented part | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040395 | strobila segments | strobila segments | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040390 | complete polyp induced 12h | complete polyp induced 12h | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8040389 | complete polyp not induced | complete polyp not induced | not recorded | not recorded | SRP165275 | 0.00 |
| SRR8089705 | endoderm (canal system) | endoderm (canal system) | not recorded | not recorded | SRP165275 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (AAURI2_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 Aurelia aurita complex sp. Pacific 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 | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Aurelia aurita complex sp. Pacific network, in either direction — it is not one of the genes the network was built from (the network covers genes with enough expression variation across the transcriptome samples). The counts above are a property of the network, not a failed lookup.
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 aurita complex sp. Pacific, 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 → |
