Genomic Location: chr3:16186319...16197491
NR annotation: XP_020622278.1, uncharacterized protein LOC110059905 [Orbicella faveolata]
Species Oculina patagonica · all data for this species · gene families
| CDS |
| ACROYT_G009912 |
| Transcript |
| rna-ACROYT_G009912.t0 |
| Protein |
| KAL9981237.1 |
| UniProt accession | Description |
|---|---|
| P86982 | Insoluble matrix shell protein 1 (Fragment) OS=Ruditapes philippinarum OX=129788 PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0000722 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01549 all species → | ShK | ShK domain-like | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR003582 all species → | Domain | ShKT domain | Interproscan |
| IPR051352 all species → | Family | Cell Adhesion and Viral Modulation Protein | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR24216 all species → | PAXILLIN-RELATED | Interproscan |
KAL9981237.1 in Oculina patagonica.KAL9981237.1.Genes whose expression across the transcriptome samples of Oculina patagonica 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 Oculina patagonica, 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 |
|---|---|---|---|---|---|
| OPATA_whole_adult | Whole adults · Adult tissues/organs | 21,775 | 31 | 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.
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 → |
