Genomic Location: sc0000139_pilon:221696...224725
NR annotation: XP_029191179.2, very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase-like [Acropora millepora]
Species Acropora selago · all data for this species · gene families
| CDS |
| asel_s0139.g22.t1 |
| Transcript |
| asel_s0139.g22.t1 |
| Protein |
| asel_s0139.g22.t1 |
| UniProt accession | Description |
|---|---|
| Q7SY06 | Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase OS=Danio rerio OX=7955 GN=hacd3 PE=2 SV=2 |
| Q8K2C9 | Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 3 OS=Mus musculus OX=10090 GN=Hacd3 PE=1 SV=2 |
| Q5ZM57 | Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase OS=Gallus gallus OX=9031 GN=HACD3 PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004355 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF04387 all species → | PTPLA | Protein tyrosine phosphatase-like protein, PTPLA | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR007482 all species → | Family | Protein-tyrosine phosphatase-like, PTPLA | Interproscan |
| IPR007052 all species → | Domain | CS domain | Interproscan |
| IPR008978 all species → | Homologous_superfamily | HSP20-like chaperone | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11035 all species → | VERY-LONG-CHAIN (3R)-3-HYDROXYACYL-COA DEHYDRATASE | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0018812 all species → | Molecular Function | 3-hydroxyacyl-CoA dehydratase activity | Interproscan |
| GO:0030148 all species → | Biological Process | sphingolipid biosynthetic process | Interproscan |
| GO:0030176 all species → | Cellular Component | obsolete integral component of endoplasmic reticulum membrane | Interproscan |
| GO:0030497 all species → | Biological Process | fatty acid elongation | Interproscan |
| GO:0042761 all species → | Biological Process | very long-chain fatty acid biosynthetic process | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K10703 | HACD, PHS1, PAS2; very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase | EC:4.2.1.134 | Lipid biosynthesis proteins | ko01004 | deepkoala |
Transcript abundance of asel_s0139.g22.t1 across 24 RNA-seq samples of Acropora selago. 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 larvae | 24 | 23 | 40.34 | 91.28 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR14308018 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 91.28 |
| SRR14308009 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 66.58 |
| SRR14308004 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 46.09 |
| SRR14308026 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 45.75 |
| SRR14308012 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 44.90 |
| SRR14308008 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 43.30 |
| SRR14308027 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 43.28 |
| SRR14308017 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 42.51 |
| SRR14308006 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 42.22 |
| SRR14308015 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 41.99 |
| SRR14308021 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 41.43 |
| SRR14308025 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 41.32 |
| SRR14308022 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 41.10 |
| SRR14308007 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 40.99 |
| SRR14308023 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 37.83 |
| SRR14308011 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 35.43 |
| SRR14308024 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 33.79 |
| SRR14308013 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 33.17 |
| SRR14308010 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 32.21 |
| SRR14308014 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 32.18 |
| SRR14308019 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 31.91 |
| SRR14308020 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 31.67 |
| SRR14308016 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 27.12 |
| SRR14308005 | coral larvae | coral larvae | not recorded | not recorded | SRP315987 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (ASELA_TPM,
StringTie quantification over 24 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 selago 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 | 37 | asel_s0116.g36.t1 | 0.955428074286834 |
| Negatively correlated | 31 | asel_s0383.g13.t1 | -0.861265964053197 |
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 selago, 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.
| Sample | Methylation profile |
|---|---|
| Coral_Fragment_Parent | open |
| Larval_Pool_Offspring | open |
The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.
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 → |
