Genomic Location: Scaffold_54__1_contigs__length_82578:75317...76708
NR annotation: WP_253966484.1, succinate--CoA ligase subunit alpha [Gilvimarinus xylanilyticus]
Species Leptoseris scabra · all data for this species · gene families
| CDS |
| ANN35028-RA |
| Transcript |
| ANN35028-RA |
| Protein |
| ANN35028-RA |
| UniProt accession | Description |
|---|---|
| Q51567 | Succinate--CoA ligase [ADP-forming] subunit alpha OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=sucD PE=1 SV=2 |
| P0AGF1 | Succinate--CoA ligase [ADP-forming] subunit alpha OS=Escherichia coli O157:H7 OX=83334 GN=sucD PE=3 SV=2 |
| P0AGF0 | Succinate--CoA ligase [ADP-forming] subunit alpha OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) OX=199310 GN=sucD PE=3 SV=2 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0004306 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF02629 all species → | CoA_binding | CoA binding domain | Domain | Interproscan |
| PF00549 all species → | Ligase_CoA | CoA-ligase | Domain | Interproscan |
| PF03061 all species → | 4HBT | Thioesterase superfamily | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR017440 all species → | Active_site | ATP-citrate lyase/succinyl-CoA ligase, active site | Interproscan |
| IPR016102 all species → | Homologous_superfamily | Succinyl-CoA synthetase-like | Interproscan |
| IPR029069 all species → | Homologous_superfamily | HotDog domain superfamily | Interproscan |
| IPR003781 all species → | Domain | CoA-binding | Interproscan |
| IPR005811 all species → | Domain | ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain | Interproscan |
| IPR003736 all species → | Domain | Phenylacetic acid degradation-related domain | Interproscan |
| IPR005810 all species → | Family | Succinyl-CoA ligase, alpha subunit | Interproscan |
| IPR006683 all species → | Domain | Thioesterase domain | Interproscan |
| IPR036291 all species → | Homologous_superfamily | NAD(P)-binding domain superfamily | Interproscan |
| IPR033847 all species → | Conserved_site | ATP-citrate lyase/succinyl-CoA ligase, conserved site | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11117 all species → | SUCCINYL-COA LIGASE SUBUNIT ALPHA | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0004775 all species → | Molecular Function | succinate-CoA ligase (ADP-forming) activity | Interproscan |
| GO:0004776 all species → | Molecular Function | succinate-CoA ligase (GDP-forming) activity | Interproscan |
| GO:0006099 all species → | Biological Process | tricarboxylic acid cycle | Interproscan |
| GO:0009361 all species → | Cellular Component | succinate-CoA ligase complex (ADP-forming) | Interproscan |
| GO:0003824 all species → | Molecular Function | catalytic activity | Interproscan |
ANN35028-RA.Genes whose expression across the transcriptome samples of Leptoseris scabra 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 Leptoseris scabra, 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. | 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 → |
