Genomic Location: chr5Alt:15792325...15864650
NR annotation: XP_044167269.1, plexin A3-like isoform X3 [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families
| CDS |
| g11221.t2 |
| Transcript |
| chr5Alt.g11221.t2 |
| Protein |
| chr5Alt.g11221.t2 |
| UniProt accession | Description |
|---|---|
| B0S5N4 | Plexin A3 OS=Danio rerio OX=7955 GN=plxna3 PE=2 SV=2 |
| Q6BEA0 | Plexin-A4 OS=Danio rerio OX=7955 GN=plxna4 PE=2 SV=1 |
| O75051 | Plexin-A2 OS=Homo sapiens OX=9606 GN=PLXNA2 PE=1 SV=4 |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01403 all species → | Sema | Sema domain | Repeat | Interproscan |
| PF20170 all species → | Plexin_RBD | Plexin cytoplasmic RhoGTPase-binding domain | Domain | Interproscan |
| PF01833 all species → | TIG | IPT/TIG domain | Domain | Interproscan |
| PF08337 all species → | Plexin_cytopl | Plexin cytoplasmic RasGAP domain | Domain | Interproscan |
| PF01437 all species → | PSI | Plexin repeat | Family | Interproscan |
| PF18020 all species → | TIG_2 | TIG domain found in plexin | Domain | Interproscan |
| PF17960 all species → | TIG_plexin | TIG domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR001627 all species → | Domain | Sema domain | Interproscan |
| IPR031148 all species → | Family | Plexin family | Interproscan |
| IPR046800 all species → | Domain | Plexin, cytoplasmic RhoGTPase-binding domain | Interproscan |
| IPR015943 all species → | Homologous_superfamily | WD40/YVTN repeat-like-containing domain superfamily | Interproscan |
| IPR013783 all species → | Homologous_superfamily | Immunoglobulin-like fold | Interproscan |
| IPR014756 all species → | Homologous_superfamily | Immunoglobulin E-set | Interproscan |
| IPR008936 all species → | Homologous_superfamily | Rho GTPase activation protein | Interproscan |
| IPR002909 all species → | Domain | IPT domain | Interproscan |
| IPR036352 all species → | Homologous_superfamily | Sema domain superfamily | Interproscan |
| IPR013548 all species → | Domain | Plexin, cytoplasmic RasGAP domain | Interproscan |
| IPR002165 all species → | Repeat | Plexin repeat | Interproscan |
| IPR041362 all species → | Domain | Plexin, TIG domain 2 | Interproscan |
| IPR016201 all species → | Domain | PSI domain | Interproscan |
| IPR041019 all species → | Domain | Plexin, TIG domain 1 | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR22625 all species → | PLEXIN | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0005515 all species → | Molecular Function | protein binding | Interproscan |
| GO:0002116 all species → | Cellular Component | semaphorin receptor complex | Interproscan |
| GO:0005887 all species → | Cellular Component | plasma membrane | Interproscan |
| GO:0017154 all species → | Molecular Function | semaphorin receptor activity | Interproscan |
| GO:0030334 all species → | Biological Process | regulation of cell migration | Interproscan |
| GO:0071526 all species → | Biological Process | semaphorin-plexin signaling pathway | Interproscan |
| GO:1902287 all species → | Biological Process | semaphorin-plexin signaling pathway involved in axon guidance | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K06820 | PLXNA; plexin A | - | Axon guidance | ko04360 | deepkoala |
Transcript abundance of g11221.t2 across 39 RNA-seq samples of Acropora digitifera. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| 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 |
| SRR23047209 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047210 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047211 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047212 | 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 |
| SRR23047216 | 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 |
| SRR23047219 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047220 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047221 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047222 | 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 |
| SRR23047228 | 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 |
| SRR23047231 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047232 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047233 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047234 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047235 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047236 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047237 | 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 |
| SRR23047243 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047244 | 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 | 0 | not in this network | - |
| Negatively correlated | 0 | not in this network | - |
This gene has no edge at all in the Acropora digitifera network, in either direction — it is not one of the genes the network was built from (the network covers genes with enough expression variation across the transcriptome samples). The counts above are a property of the network, not a failed lookup.
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. | 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 → |
