Genomic Location: HiC_scaffold_340:563664...572918
NR annotation: CAB4014243.1, Transposon Ty3-G Gag-Pol poly [Paramuricea clavata]
Species Chrysaora quinquecirrha · all data for this species · gene families
| CDS |
| evm.model.HiC_scaffold_340.75 |
| Transcript |
| evm.model.HiC_scaffold_340.75 |
| Protein |
| evm.model.HiC_scaffold_340.75 |
| UniProt accession | Description |
|---|---|
| P04323 | Retrovirus-related Pol polyprotein from transposon 17.6 OS=Drosophila melanogaster OX=7227 GN=pol PE=4 SV=1 |
| P20825 | Retrovirus-related Pol polyprotein from transposon 297 OS=Drosophila melanogaster OX=7227 GN=pol PE=4 SV=1 |
| Q99315 | Transposon Ty3-G Gag-Pol polyprotein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=TY3B-G PE=1 SV=3 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0000011 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF17917 all species → | RT_RNaseH | RNase H-like domain found in reverse transcriptase | Domain | Interproscan |
| PF17921 all species → | Integrase_H2C2 | Integrase zinc binding domain | Domain | Interproscan |
| PF00665 all species → | rve | Integrase core domain | Domain | Interproscan |
| PF13975 all species → | gag-asp_proteas | gag-polyprotein putative aspartyl protease | Domain | Interproscan |
| PF00098 all species → | zf-CCHC | Zinc knuckle | Domain | Interproscan |
| PF00078 all species → | RVT_1 | Reverse transcriptase (RNA-dependent DNA polymerase) | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR043128 all species → | Homologous_superfamily | Reverse transcriptase/Diguanylate cyclase domain | Interproscan |
| IPR001878 all species → | Domain | Zinc finger, CCHC-type | Interproscan |
| IPR012337 all species → | Homologous_superfamily | Ribonuclease H-like superfamily | Interproscan |
| IPR021109 all species → | Homologous_superfamily | Aspartic peptidase domain superfamily | Interproscan |
| IPR041373 all species → | Domain | Reverse transcriptase, RNase H-like domain | Interproscan |
| IPR036875 all species → | Homologous_superfamily | Zinc finger, CCHC-type superfamily | Interproscan |
| IPR001584 all species → | Domain | Integrase, catalytic core | Interproscan |
| IPR000477 all species → | Domain | Reverse transcriptase domain | Interproscan |
| IPR036397 all species → | Homologous_superfamily | Ribonuclease H superfamily | Interproscan |
| IPR043502 all species → | Homologous_superfamily | DNA/RNA polymerase superfamily | Interproscan |
| IPR041588 all species → | Domain | Integrase zinc-binding domain | Interproscan |
| IPR050951 all species → | Family | Retrovirus-related Pol polyprotein | Interproscan |
| IPR001969 all species → | Active_site | Aspartic peptidase, active site | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR37984 all species → | PROTEIN CBG26694 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003676 all species → | Molecular Function | nucleic acid binding | Interproscan |
| GO:0008270 all species → | Molecular Function | zinc ion binding | Interproscan |
| GO:0015074 all species → | Biological Process | DNA integration | Interproscan |
| GO:0004190 all species → | Molecular Function | aspartic-type endopeptidase activity | Interproscan |
| GO:0006508 all species → | Biological Process | proteolysis | Interproscan |
evm.model.HiC_scaffold_340.75.Genes whose expression across the transcriptome samples of Chrysaora quinquecirrha 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.
No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.
Whether this gene can be visualised in the single-cell atlases of Chrysaora quinquecirrha, 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 → |
