Genomic Location: sc0000002_pilon:5432360...5450679
NR annotation: XP_029194280.2, calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type-like [Acropora millepora]
Species Acropora gemmifera · all data for this species · gene families
| CDS |
| agem_s0002.g470.t1 |
| Transcript |
| agem_s0002.g470.t1 |
| Protein |
| agem_s0002.g470.t1 |
| UniProt accession | Description |
|---|---|
| P22700 | Calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type OS=Drosophila melanogaster OX=7227 GN=SERCA PE=1 SV=2 |
| Q7PPA5 | Calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type OS=Anopheles gambiae OX=7165 GN=SERCA PE=3 SV=5 |
| Q292Q0 | Calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type OS=Drosophila pseudoobscura pseudoobscura OX=46245 GN=SERCA PE=3 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0001607 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00702 all species → | Hydrolase | haloacid dehalogenase-like hydrolase | Domain | Interproscan |
| PF00690 all species → | Cation_ATPase_N | Cation transporter/ATPase, N-terminus | Domain | Interproscan |
| PF00122 all species → | E1-E2_ATPase | E1-E2 ATPase | Family | Interproscan |
| PF00689 all species → | Cation_ATPase_C | Cation transporting ATPase, C-terminus | Family | Interproscan |
| PF13246 all species → | Cation_ATPase | Cation transport ATPase (P-type) | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR036412 all species → | Homologous_superfamily | HAD-like superfamily | Interproscan |
| IPR008250 all species → | Homologous_superfamily | P-type ATPase, A domain superfamily | Interproscan |
| IPR004014 all species → | Domain | Cation-transporting P-type ATPase, N-terminal | Interproscan |
| IPR023299 all species → | Homologous_superfamily | P-type ATPase, cytoplasmic domain N | Interproscan |
| IPR006068 all species → | Domain | Cation-transporting P-type ATPase, C-terminal | Interproscan |
| IPR001757 all species → | Family | P-type ATPase | Interproscan |
| IPR023298 all species → | Homologous_superfamily | P-type ATPase, transmembrane domain superfamily | Interproscan |
| IPR044492 all species → | Domain | P-type ATPase, haloacid dehalogenase domain | Interproscan |
| IPR018303 all species → | PTM | P-type ATPase, phosphorylation site | Interproscan |
| IPR005782 all species → | Family | P-type ATPase, subfamily IIA, SERCA-type | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR42861 all species → | CALCIUM-TRANSPORTING ATPASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0000166 all species → | Molecular Function | nucleotide binding | Interproscan |
| GO:0005215 all species → | Molecular Function | transporter activity | Interproscan |
| GO:0005524 all species → | Molecular Function | ATP binding | Interproscan |
| GO:0016020 all species → | Cellular Component | membrane | Interproscan |
| GO:0016887 all species → | Molecular Function | ATP hydrolysis activity | Interproscan |
| GO:0005388 all species → | Molecular Function | P-type calcium transporter activity | Interproscan |
| GO:0006816 all species → | Biological Process | calcium ion transport | Interproscan |
| GO:0006874 all species → | Biological Process | intracellular calcium ion homeostasis | Interproscan |
| GO:0015662 all species → | Molecular Function | P-type ion transporter activity | Interproscan |
| GO:0016021 all species → | Cellular Component | membrane | Interproscan |
| GO:0034220 all species → | Biological Process | monoatomic ion transmembrane transport | Interproscan |
| GO:0070588 all species → | Biological Process | calcium ion transmembrane transport | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K05853 | ATP2A; P-type Ca2+ transporter type 2A | EC:7.2.2.10 | Diabetic cardiomyopathy | ko05415 | deepkoala |
Transcript abundance of agem_s0002.g470.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 | 3.54 | 61.31 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR2169558 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 61.31 |
| SRR3223317 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 55.43 |
| SRR3223319 | branch tip | branch tip | not recorded | not recorded | SRP062488 | 53.36 |
| 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 | 8 | agem_s0172.g12.t1 | 0.999999592358543 |
| Negatively correlated | 3 | agem_s0028.g73.t1 | -0.61913276622605 |
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 → |
