Genomic Location: sc0000013_pilon:3154567...3189130
NR annotation: XP_044177493.1, cGMP-dependent 3',5'-cyclic phosphodiesterase-like [Acropora millepora]
Species Acropora gemmifera · all data for this species · gene families
| CDS |
| agem_s0013.g215.t1 |
| Transcript |
| agem_s0013.g215.t1 |
| Protein |
| agem_s0013.g215.t1 |
| UniProt accession | Description |
|---|---|
| Q01062 | cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Rattus norvegicus OX=10116 GN=Pde2a PE=1 SV=2 |
| O00408 | cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Homo sapiens OX=9606 GN=PDE2A PE=1 SV=1 |
| P14099 | cGMP-dependent 3',5'-cyclic phosphodiesterase OS=Bos taurus OX=9913 GN=PDE2A PE=1 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0002946 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00233 all species → | PDEase_I | 3'5'-cyclic nucleotide phosphodiesterase | Domain | Interproscan |
| PF00001 all species → | 7tm_1 | 7 transmembrane receptor (rhodopsin family) | Family | Interproscan |
| PF01590 all species → | GAF | GAF domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR000276 all species → | Family | G protein-coupled receptor, rhodopsin-like | Interproscan |
| IPR036971 all species → | Homologous_superfamily | 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain superfamily | Interproscan |
| IPR002073 all species → | Domain | 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain | Interproscan |
| IPR023088 all species → | Family | 3'5'-cyclic nucleotide phosphodiesterase | Interproscan |
| IPR017452 all species → | Domain | GPCR, rhodopsin-like, 7TM | Interproscan |
| IPR003018 all species → | Domain | GAF domain | Interproscan |
| IPR029016 all species → | Homologous_superfamily | GAF-like domain superfamily | Interproscan |
| IPR023174 all species → | Conserved_site | 3'5'-cyclic nucleotide phosphodiesterase, conserved site | Interproscan |
| IPR003607 all species → | Domain | HD/PDEase domain | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11347 all species → | CYCLIC NUCLEOTIDE PHOSPHODIESTERASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0004930 all species → | Molecular Function | G protein-coupled receptor activity | Interproscan |
| GO:0007186 all species → | Biological Process | G protein-coupled receptor signaling pathway | Interproscan |
| GO:0016020 all species → | Cellular Component | membrane | Interproscan |
| GO:0004114 all species → | Molecular Function | 3',5'-cyclic-nucleotide phosphodiesterase activity | Interproscan |
| GO:0007165 all species → | Biological Process | signal transduction | Interproscan |
| GO:0008081 all species → | Molecular Function | phosphoric diester hydrolase activity | Interproscan |
| GO:0005515 all species → | Molecular Function | protein binding | Interproscan |
| GO:0004115 all species → | Molecular Function | 3',5'-cyclic-AMP phosphodiesterase activity | Interproscan |
| GO:0004118 all species → | Molecular Function | 3',5'-cGMP-stimulated cyclic-nucleotide phosphodiesterase activity | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0005741 all species → | Cellular Component | mitochondrial outer membrane | Interproscan |
| GO:0005743 all species → | Cellular Component | mitochondrial inner membrane | Interproscan |
| GO:0005759 all species → | Cellular Component | mitochondrial matrix | Interproscan |
| GO:0005829 all species → | Cellular Component | cytosol | Interproscan |
| GO:0010628 all species → | Biological Process | positive regulation of gene expression | Interproscan |
| GO:0010754 all species → | Biological Process | negative regulation of cGMP-mediated signaling | Interproscan |
| GO:0010821 all species → | Biological Process | regulation of mitochondrion organization | Interproscan |
| GO:0019933 all species → | Biological Process | cAMP-mediated signaling | Interproscan |
| GO:0019934 all species → | Biological Process | cGMP-mediated signaling | Interproscan |
| GO:0042803 all species → | Molecular Function | protein homodimerization activity | Interproscan |
| GO:0043951 all species → | Biological Process | negative regulation of cAMP-mediated signaling | Interproscan |
| GO:0046069 all species → | Biological Process | cGMP catabolic process | Interproscan |
| GO:0047555 all species → | Molecular Function | 3',5'-cyclic-GMP phosphodiesterase activity | Interproscan |
| GO:0048471 all species → | Cellular Component | perinuclear region of cytoplasm | Interproscan |
| GO:0097060 all species → | Cellular Component | synaptic membrane | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K18283 | PDE2A; cGMP-dependent 3',5'-cyclic phosphodiesterase | EC:3.1.4.17 | Morphine addiction | ko05032 | deepkoala |
Transcript abundance of agem_s0013.g215.t1 across 48 RNA-seq samples of Acropora gemmifera. 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 |
|---|---|---|---|---|---|
| branch tip | 48 | 3 | 0.87 | 18.24 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR3223317 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 18.24 |
| SRR2169558 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 17.04 |
| SRR3223319 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 6.45 |
| SRR3169421 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169422 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169423 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169425 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169426 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169518 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169527 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169528 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169529 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169530 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169531 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169532 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169533 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169534 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169535 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169536 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169537 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169538 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169539 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169540 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3169541 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182410 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182448 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182557 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182684 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182685 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182686 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182775 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182776 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182777 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182778 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182779 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182780 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182781 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182784 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182785 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182786 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182787 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182788 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182789 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182790 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182791 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182792 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182793 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
| SRR3182794 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (AGEMM_TPM,
StringTie quantification over 48 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 gemmifera 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 | 10 | agem_s0009.g98.t1 | 0.999936068284639 |
| Negatively correlated | 3 | agem_s0028.g73.t1 | -0.576386926906184 |
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 gemmifera, 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. | 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 → |
