Genomic Location: NC_088923.1:4592876...4594692
NR annotation: XP_047145111.1, ZZ-type zinc finger-containing protein 3 isoform X1 [Hydra vulgaris]
Species Hydra vulgaris · all data for this species · gene families
| CDS |
| LOC100213357 |
| Transcript |
| rna-XM_065795278.1 |
| Protein |
| XP_065651350.1 |
| UniProt accession | Description |
|---|---|
| Q8IYH5 | ZZ-type zinc finger-containing protein 3 OS=Homo sapiens OX=9606 GN=ZZZ3 PE=1 SV=1 |
| Q6KAQ7 | ZZ-type zinc finger-containing protein 3 OS=Mus musculus OX=10090 GN=Zzz3 PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004130 (this species only) · gene tree & orthology |
| Transcription factor family | MYB · all TF in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00569 all species → | ZZ | Zinc finger, ZZ type | Domain | Interproscan |
| PF00249 all species → | Myb_DNA-binding | Myb-like DNA-binding domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001005 all species → | Domain | SANT/Myb domain | Interproscan |
| IPR000433 all species → | Domain | Zinc finger, ZZ-type | Interproscan |
| IPR043145 all species → | Homologous_superfamily | Zinc finger, ZZ-type superfamily | Interproscan |
| IPR017930 all species → | Domain | Myb domain | Interproscan |
| IPR037830 all species → | Family | ZZ-type zinc finger-containing protein 3 | Interproscan |
| IPR009057 all species → | Homologous_superfamily | Homeobox-like domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR22705 all species → | ZINC FINGER, ZZ DOMAIN CONTAINING 3 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K24536 | ZZZ3; ZZ-type zinc finger-containing protein 3 | - | Chromosome and associated proteins | ko03036 | deepkoala |
Transcript abundance of XP_065651350.1 across 60 RNA-seq samples of Hydra vulgaris. 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 |
|---|---|---|---|---|---|
| Regenerating head · dmso treatment | 18 | 0 | 0.00 | 0.00 | |
| Regenerating head · 25uM U0126 treatment | 15 | 0 | 0.00 | 0.00 | |
| Regenerating foot · dmso treatment | 9 | 0 | 0.00 | 0.00 | |
| Regenerating foot · 25uM U0126 treatment | 8 | 0 | 0.00 | 0.00 | |
| Regenerating head · u0126 treatment | 3 | 0 | 0.00 | 0.00 | |
| Whole animal · 25uM U0126 treatment | 3 | 0 | 0.00 | 0.00 | |
| Whole animal · dmso treatment | 3 | 0 | 0.00 | 0.00 | |
| Regenerating foot · u0126 treatment | 1 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR36435271 | Regenerating head · dmso treatment | Regenerating head | 12hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435272 | Regenerating head · dmso treatment | Regenerating head | 12hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435273 | Regenerating head · dmso treatment | Regenerating head | 12hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435277 | Regenerating head · dmso treatment | Regenerating head | 8hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435279 | Regenerating head · dmso treatment | Regenerating head | 8hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435280 | Regenerating head · dmso treatment | Regenerating head | 8hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435284 | Regenerating head · dmso treatment | Regenerating head | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435285 | Regenerating head · dmso treatment | Regenerating head | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435286 | Regenerating head · dmso treatment | Regenerating head | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435304 | Regenerating head · dmso treatment | Regenerating head | 1.5hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435305 | Regenerating head · dmso treatment | Regenerating head | 1.5hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435306 | Regenerating head · dmso treatment | Regenerating head | 1.5hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435307 | Regenerating head · dmso treatment | Regenerating head | 3hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435308 | Regenerating head · dmso treatment | Regenerating head | 3hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435309 | Regenerating head · dmso treatment | Regenerating head | 3hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435310 | Regenerating head · dmso treatment | Regenerating head | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435312 | Regenerating head · dmso treatment | Regenerating head | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435313 | Regenerating head · dmso treatment | Regenerating head | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435274 | Regenerating head · 25uM U0126 treatment | Regenerating head | 8hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435275 | Regenerating head · 25uM U0126 treatment | Regenerating head | 8hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435276 | Regenerating head · 25uM U0126 treatment | Regenerating head | 8hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435281 | Regenerating head · 25uM U0126 treatment | Regenerating head | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435282 | Regenerating head · 25uM U0126 treatment | Regenerating head | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435283 | Regenerating head · 25uM U0126 treatment | Regenerating head | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435294 | Regenerating head · 25uM U0126 treatment | Regenerating head | 1.5hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435295 | Regenerating head · 25uM U0126 treatment | Regenerating head | 1.5hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435296 | Regenerating head · 25uM U0126 treatment | Regenerating head | 1.5hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435297 | Regenerating head · 25uM U0126 treatment | Regenerating head | 3hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435298 | Regenerating head · 25uM U0126 treatment | Regenerating head | 3hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435299 | Regenerating head · 25uM U0126 treatment | Regenerating head | 3hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435301 | Regenerating head · 25uM U0126 treatment | Regenerating head | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435302 | Regenerating head · 25uM U0126 treatment | Regenerating head | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435303 | Regenerating head · 25uM U0126 treatment | Regenerating head | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435265 | Regenerating foot · dmso treatment | Regenerating foot | 1.5hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435266 | Regenerating foot · dmso treatment | Regenerating foot | 1.5hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435267 | Regenerating foot · dmso treatment | Regenerating foot | 1.5hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435278 | Regenerating foot · dmso treatment | Regenerating foot | 3hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435289 | Regenerating foot · dmso treatment | Regenerating foot | 3hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435300 | Regenerating foot · dmso treatment | Regenerating foot | 3hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435311 | Regenerating foot · dmso treatment | Regenerating foot | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435322 | Regenerating foot · dmso treatment | Regenerating foot | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435323 | Regenerating foot · dmso treatment | Regenerating foot | 0hpa | dmso treatment | SRP654941 | 0.00 |
| SRR36435314 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 1.5hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435315 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 1.5hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435316 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 1.5hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435317 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 3hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435318 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 3hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435319 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 3hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435320 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435321 | Regenerating foot · 25uM U0126 treatment | Regenerating foot | 0hpa | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435268 | Regenerating head · u0126 treatment | Regenerating head | 12hpa | u0126 treatment | SRP654941 | 0.00 |
| SRR36435269 | Regenerating head · u0126 treatment | Regenerating head | 12hpa | u0126 treatment | SRP654941 | 0.00 |
| SRR36435270 | Regenerating head · u0126 treatment | Regenerating head | 12hpa | u0126 treatment | SRP654941 | 0.00 |
| SRR36435287 | Whole animal · 25uM U0126 treatment | Whole animal | 12h | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435288 | Whole animal · 25uM U0126 treatment | Whole animal | 12h | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435290 | Whole animal · 25uM U0126 treatment | Whole animal | 12h | 25uM U0126 treatment | SRP654941 | 0.00 |
| SRR36435291 | Whole animal · dmso treatment | Whole animal | 12h | dmso treatment | SRP654941 | 0.00 |
| SRR36435292 | Whole animal · dmso treatment | Whole animal | 12h | dmso treatment | SRP654941 | 0.00 |
| SRR36435293 | Whole animal · dmso treatment | Whole animal | 12h | dmso treatment | SRP654941 | 0.00 |
| SRR36435264 | Regenerating foot · u0126 treatment | Regenerating foot | 0hpa | u0126 treatment | SRP654941 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (HVULG_TPM,
StringTie quantification over 60 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 vulgaris 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 Hydra vulgaris 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 Hydra vulgaris, 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.
| Dataset | Tissue / stage | Cells | Cell types | This gene | Marker of |
|---|---|---|---|---|---|
| HVULG_siebert_atlas | Whole animals · Adult (whole animal) | 25,438 | 42 | not in this dataset | – |
A gene is in viewer when the dataset ships a per-cell expression vector for it; marker only means it is in the dataset’s ranked marker table but no vector was exported, so the atlas cannot draw it; not in this dataset means the dataset’s own gene-ID table does not list it, so no expression claim can be made for that dataset. unmapped is deliberately weaker still: the dataset has no gene-ID table on CnidoSite yet, so nothing is claimed in either direction. Where markers are listed, the numbers are log2 fold change and the percentage of cells of that type in which the gene was detected.
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.
| Assay | Sample | Peaks | Region |
|---|---|---|---|
| ChIP-seq | H3K27ac_head | 2 | Promoter (<=1kb) 2 |
| H3K27ac_regenerating_head_0hr | 2 | Promoter (<=1kb) 2 | |
| H3K27ac_regenerating_head_24hr | 2 | Promoter (1-2kb) 1 · Promoter (<=1kb) 1 | |
| H3K27ac_regenerating_head_4hr | 1 | Promoter (<=1kb) 1 | |
| H3K27ac_regenerating_head_6hr | 1 | Promoter (<=1kb) 1 | |
| H3K27ac_whole_polyp_24hr_DMSO_control | 1 | Promoter (<=1kb) 1 | |
| H3K27ac_wholeAnimal | 1 | Promoter (<=1kb) 1 | |
| H3K4me2_head | 1 | Promoter (<=1kb) 1 | |
| H3K4me2_regenerating_head_0hr | 1 | Promoter (<=1kb) 1 | |
| H3K4me2_regenerating_head_24hr | 1 | Promoter (<=1kb) 1 | |
| H3K4me2_regenerating_head_4hr | 1 | Promoter (<=1kb) 1 | |
| H3K4me2_regenerating_head_6hr | 1 | Promoter (<=1kb) 1 | |
| H3K4me2_wholeAnimal | 2 | Promoter (<=1kb) 2 | |
| H3K4me3_head | 1 | Promoter (<=1kb) 1 | |
| H3K4me3_regenerating_head_0hr | 1 | Promoter (<=1kb) 1 |
4 further sample(s) also have peaks at this gene; open the assay page below to see them all.
Browse the full epigenomic landscape of this species: ChIP-seq.
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 → |
