Genomic Location: QPEY01000524.1:618854...621705
NR annotation: OZI32566.1, lytic transglycosylase [Bordetella genomosp. 10]
Species Hydra viridissima · all data for this species · gene families
| CDS |
| BRAKERKRET00000023898 |
| Transcript |
| BRAKERKRET00000023898 |
| Protein |
| BRAKERKREP00000023898.1 |
| UniProt accession | Description |
|---|---|
| Q7U367 | CCA-adding enzyme OS=Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253) OX=257311 GN=cca PE=3 SV=1 |
| Q7U391 | CCA-adding enzyme OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) OX=257310 GN=cca PE=3 SV=1 |
| Q7U358 | CCA-adding enzyme OS=Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251) OX=257313 GN=cca PE=3 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0024796 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01464 all species → | SLT | Transglycosylase SLT domain | Domain | Interproscan |
| PF12627 all species → | PolyA_pol_RNAbd | Probable RNA and SrmB- binding site of polymerase A | Domain | Interproscan |
| PF01743 all species → | PolyA_pol | Poly A polymerase head domain | Domain | Interproscan |
| PF14718 all species → | SLT_L | Soluble lytic murein transglycosylase L domain | Repeat | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR008258 all species → | Domain | Transglycosylase SLT domain 1 | Interproscan |
| IPR032828 all species → | Domain | tRNA nucleotidyltransferase/poly(A) polymerase, RNA and SrmB- binding domain | Interproscan |
| IPR043519 all species → | Homologous_superfamily | Nucleotidyltransferase superfamily | Interproscan |
| IPR023346 all species → | Homologous_superfamily | Lysozyme-like domain superfamily | Interproscan |
| IPR002646 all species → | Domain | Poly A polymerase, head domain | Interproscan |
| IPR037061 all species → | Homologous_superfamily | Lytic transglycosylase, superhelical linker domain superfamily | Interproscan |
| IPR008939 all species → | Homologous_superfamily | Lytic transglycosylase, superhelical U-shaped | Interproscan |
| IPR012289 all species → | Domain | Lytic transglycosylase, superhelical linker | Interproscan |
| IPR050124 all species → | Family | tRNA CCA-adding enzyme | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR47545 all species → | MULTIFUNCTIONAL CCA PROTEIN | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003723 all species → | Molecular Function | RNA binding | Interproscan |
| GO:0006396 all species → | Biological Process | RNA processing | Interproscan |
| GO:0016779 all species → | Molecular Function | nucleotidyltransferase activity | Interproscan |
| GO:0004553 all species → | Molecular Function | hydrolase activity, hydrolyzing O-glycosyl compounds | Interproscan |
| GO:0042597 all species → | Cellular Component | periplasmic space | Interproscan |
BRAKERKREP00000023898.1.Transcript abundance of BRAKERKREP00000023898.1 across 29 RNA-seq samples of Hydra viridissima. 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 |
|---|---|---|---|---|---|
| whole body | 18 | 0 | 0.00 | 0.00 | |
| Whole | 6 | 0 | 0.00 | 0.00 | |
| 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 |
| SRR10058802 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.00 |
| SRR10058803 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.00 |
| SRR10058804 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.00 |
| SRR10058805 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.00 |
| SRR10058806 | Whole | Whole | not recorded | not recorded | SRP220397 | 0.00 |
| SRR10058807 | 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 | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Hydra viridissima 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 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. | 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 → |
