Genomic Location: chr1Alt:741338...755935
NR annotation: XP_044180160.1, fibroblast growth factor receptor 4-like isoform X1 [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families
| CDS |
| g55.t1 |
| Transcript |
| chr1Alt.g55.t1 |
| Protein |
| chr1Alt.g55.t1 |
| UniProt accession | Description |
|---|---|
| P35546 | Proto-oncogene tyrosine-protein kinase receptor Ret OS=Mus musculus OX=10090 GN=Ret PE=1 SV=2 |
| G3V9H8 | Proto-oncogene tyrosine-protein kinase receptor Ret OS=Rattus norvegicus OX=10116 GN=Ret PE=1 SV=1 |
| P07949 | Proto-oncogene tyrosine-protein kinase receptor Ret OS=Homo sapiens OX=9606 GN=RET PE=1 SV=3 |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF07714 all species → | PK_Tyr_Ser-Thr | Protein tyrosine and serine/threonine kinase | Domain | Interproscan |
| PF13927 all species → | Ig_3 | Immunoglobulin domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR013783 all species → | Homologous_superfamily | Immunoglobulin-like fold | Interproscan |
| IPR000719 all species → | Domain | Protein kinase domain | Interproscan |
| IPR003599 all species → | Domain | Immunoglobulin subtype | Interproscan |
| IPR011009 all species → | Homologous_superfamily | Protein kinase-like domain superfamily | Interproscan |
| IPR007110 all species → | Domain | Immunoglobulin-like domain | Interproscan |
| IPR050122 all species → | Family | Receptor Tyrosine Kinase | Interproscan |
| IPR036364 all species → | Homologous_superfamily | SEA domain superfamily | Interproscan |
| IPR001245 all species → | Domain | Serine-threonine/tyrosine-protein kinase, catalytic domain | Interproscan |
| IPR020635 all species → | Domain | Tyrosine-protein kinase, catalytic domain | Interproscan |
| IPR003598 all species → | Domain | Immunoglobulin subtype 2 | Interproscan |
| IPR008266 all species → | Active_site | Tyrosine-protein kinase, active site | Interproscan |
| IPR036179 all species → | Homologous_superfamily | Immunoglobulin-like domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR24416 all species → | TYROSINE-PROTEIN KINASE RECEPTOR | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0004672 all species → | Molecular Function | protein kinase activity | Interproscan |
| GO:0005524 all species → | Molecular Function | ATP binding | Interproscan |
| GO:0006468 all species → | Biological Process | protein phosphorylation | Interproscan |
| GO:0004714 all species → | Molecular Function | transmembrane receptor protein tyrosine kinase activity | Interproscan |
| GO:0005887 all species → | Cellular Component | plasma membrane | Interproscan |
| GO:0007169 all species → | Biological Process | cell surface receptor protein tyrosine kinase signaling pathway | Interproscan |
| GO:0007275 all species → | Biological Process | multicellular organism development | Interproscan |
| GO:0033674 all species → | Biological Process | positive regulation of kinase activity | Interproscan |
| GO:0043235 all species → | Cellular Component | receptor complex | Interproscan |
| GO:0004713 all species → | Molecular Function | protein tyrosine kinase activity | Interproscan |
g55.t1.Transcript abundance of g55.t1 across 39 RNA-seq samples of Acropora digitifera. 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 | 17 | 1.10 | 5.14 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR23047241 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 5.14 |
| SRR23047231 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 4.13 |
| SRR23047206 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 3.90 |
| SRR23047240 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 3.05 |
| SRR23047233 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.77 |
| SRR23047230 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.67 |
| SRR23047234 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.66 |
| SRR23047232 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.57 |
| SRR23047226 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.35 |
| SRR23047219 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.28 |
| SRR23047227 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.12 |
| SRR23047244 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 2.00 |
| SRR23047214 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.90 |
| SRR23047239 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.68 |
| SRR23047217 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.62 |
| SRR23047216 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 1.18 |
| SRR23047220 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.99 |
| 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 |
| SRR23047215 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047218 | 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 |
| SRR23047228 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047229 | 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 |
| SRR23047242 | Coral branch | Coral branch | adult | not recorded | SRP416931 | 0.00 |
| SRR23047243 | 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 | 5 | g25450.t1 | -0.659287622476302 |
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. | 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 → |
