Genomic Location: chr12Alt:9212203...9223255
NR annotation: XP_044178296.1, polycystin-1-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families
| CDS |
| g25745.t1 |
| Transcript |
| chr12Alt.g25745.t1 |
| Protein |
| chr12Alt.g25745.t1 |
| UniProt accession | Description |
|---|---|
| Q7TN88 | Polycystin-1-like protein 2 OS=Mus musculus OX=10090 GN=Pkd1l2 PE=2 SV=1 |
| Q7Z442 | Polycystin-1-like protein 2 OS=Homo sapiens OX=9606 GN=PKD1L2 PE=1 SV=5 |
| O08852 | Polycystin-1 OS=Mus musculus OX=10090 GN=Pkd1 PE=1 SV=2 |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01477 all species → | PLAT | PLAT/LH2 domain | Domain | Interproscan |
| PF01825 all species → | GPS | GPCR proteolysis site, GPS, motif | Motif | Interproscan |
| PF20519 all species → | Polycystin_dom | Polycystin domain | Domain | Interproscan |
| PF02010 all species → | REJ | REJ domain | Family | Interproscan |
| PF08016 all species → | PKD_channel | Polycystin cation channel | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001024 all species → | Domain | PLAT/LH2 domain | Interproscan |
| IPR000203 all species → | Conserved_site | GPS motif | Interproscan |
| IPR046338 all species → | Homologous_superfamily | GAIN domain superfamily | Interproscan |
| IPR036392 all species → | Homologous_superfamily | PLAT/LH2 domain superfamily | Interproscan |
| IPR046791 all species → | Domain | Polycystin domain | Interproscan |
| IPR003915 all species → | Family | Polycystic kidney disease type 2 protein | Interproscan |
| IPR002859 all species → | Domain | PKD/REJ-like domain | Interproscan |
| IPR051223 all species → | Family | Polycystin | Interproscan |
| IPR013122 all species → | Domain | Polycystin cation channel, PKD1/PKD2 | Interproscan |
| IPR014010 all species → | Domain | REJ domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR10877 all species → | POLYCYSTIN FAMILY MEMBER | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005515 all species → | Molecular Function | protein binding | Interproscan |
| GO:0005509 all species → | Molecular Function | calcium ion binding | Interproscan |
| GO:0016020 all species → | Cellular Component | membrane | Interproscan |
| GO:0005262 all species → | Molecular Function | calcium channel activity | Interproscan |
| GO:0050982 all species → | Biological Process | detection of mechanical stimulus | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K04988 | PKD1L2; polycystin 1L2 | - | Ion channels | ko04040 | deepkoala |
Transcript abundance of g25745.t1 across 39 RNA-seq samples of Acropora digitifera. 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 |
|---|---|---|---|---|---|
| Coral branch | 39 | 16 | 0.38 | 1.91 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR23047222 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.91 |
| SRR23047236 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.29 |
| SRR23047232 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.26 |
| SRR23047243 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.23 |
| SRR23047237 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.23 |
| SRR23047209 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.10 |
| SRR23047220 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.04 |
| SRR23047219 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.94 |
| SRR23047221 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.91 |
| SRR23047244 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.81 |
| SRR23047211 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.81 |
| SRR23047228 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.78 |
| SRR23047231 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.56 |
| SRR23047212 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.42 |
| SRR23047216 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.38 |
| SRR23047234 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.31 |
| SRR23047206 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047207 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047208 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047210 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047213 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047214 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047215 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047217 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047218 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047223 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047224 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047225 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047226 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047227 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047229 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047230 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047233 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047235 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047238 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047239 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047240 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047241 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047242 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM,
StringTie quantification over 39 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 Acropora digitifera 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 | 9 | g4746.t1 | 0.774189397590799 |
| Negatively correlated | 8 | g10196.t1 | -0.7077934977385 |
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 Acropora digitifera, 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.
| Assay | Sample | Peaks | Region |
|---|
No called peak overlaps this gene in 1 available assay. Either the gene is not near an accessible or marked region in those samples, or it is not represented in the peak caller’s annotation.
Browse the full epigenomic landscape of this species: DNase-seq (DHS).
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. | ready | open → |
| 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 → |
