Genomic Location: sc0000051_pilon:655942...663229
NR annotation: XP_044176436.1, nuclear factor of activated T-cells, cytoplasmic 4-like isoform X4 [Acropora millepora]
Species Acropora muricata · all data for this species · gene families
| CDS |
| amur_s0051.g39.t4 |
| Transcript |
| amur_s0051.g39.t4 |
| Protein |
| amur_s0051.g39.t4 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0001935 (this species only) · gene tree & orthology |
| Transcription factor family | RHD · all TF in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF00554 all species → | RHD_DNA_bind | Rel homology DNA-binding domain | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR037059 all species → | Homologous_superfamily | Rel homology domain (RHD), DNA-binding domain superfamily | Interproscan |
| IPR013783 all species → | Homologous_superfamily | Immunoglobulin-like fold | Interproscan |
| IPR011539 all species → | Domain | Rel homology domain, DNA-binding domain | Interproscan |
| IPR008366 all species → | Family | Nuclear factor of activated T cells (NFAT) | Interproscan |
| IPR008967 all species → | Homologous_superfamily | p53-like transcription factor, DNA-binding domain superfamily | Interproscan |
| IPR014756 all species → | Homologous_superfamily | Immunoglobulin E-set | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR12533 all species → | NFAT | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0003700 all species → | Molecular Function | DNA-binding transcription factor activity | Interproscan |
| GO:0006355 all species → | Biological Process | regulation of DNA-templated transcription | Interproscan |
| GO:0000978 all species → | Molecular Function | RNA polymerase II cis-regulatory region sequence-specific DNA binding | Interproscan |
| GO:0000981 all species → | Molecular Function | DNA-binding transcription factor activity, RNA polymerase II-specific | Interproscan |
| GO:0005667 all species → | Cellular Component | transcription regulator complex | Interproscan |
| GO:0006357 all species → | Biological Process | regulation of transcription by RNA polymerase II | Interproscan |
| GO:0008134 all species → | Molecular Function | transcription factor binding | Interproscan |
amur_s0051.g39.t4.Transcript abundance of amur_s0051.g39.t4 across 82 RNA-seq samples of Acropora muricata. 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 |
|---|---|---|---|---|---|
| Polyps | 79 | 0 | 0.00 | 0.00 | |
| Severed branch | 3 | 0 | 0.00 | 0.00 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR12710849 | Polyps | Polyps | OA 2 day3 | not recorded | SRP199550 | 0.00 |
| SRR12710850 | Polyps | Polyps | OA 2 day3 | not recorded | SRP199550 | 0.00 |
| SRR12710851 | Polyps | Polyps | OA 2 day3 | not recorded | SRP199550 | 0.00 |
| SRR12710859 | Polyps | Polyps | OA 2 day9 | not recorded | SRP199550 | 0.00 |
| SRR12710860 | Polyps | Polyps | OA 2 day9 | not recorded | SRP199550 | 0.00 |
| SRR12710861 | Polyps | Polyps | OA 2 day9 | not recorded | SRP199550 | 0.00 |
| SRR12786899 | Polyps | Polyps | OA 2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12786900 | Polyps | Polyps | OA 2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12786901 | Polyps | Polyps | OA 2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12807382 | Polyps | Polyps | OA2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12904784 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR12904785 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR12904786 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR12927881 | Polyps | Polyps | E2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12959191 | Polyps | polyps | E2 day21 | not recorded | SRP199550 | 0.00 |
| SRR12959192 | Polyps | Polyps | E2 day21 | not recorded | SRP199550 | 0.00 |
| SRR12959193 | Polyps | Polyps | E2 day21 | not recorded | SRP199550 | 0.00 |
| SRR12959195 | Polyps | Polyps | E2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12959204 | Polyps | Polyps | E2 day15 | not recorded | SRP199550 | 0.00 |
| SRR12959205 | Polyps | Polyps | E2 day15 | not recorded | SRP199550 | 0.00 |
| SRR12959206 | Polyps | Polyps | E2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12959207 | Polyps | Polyps | E2 day15 | not recorded | SRP199550 | 0.00 |
| SRR12959217 | Polyps | Polyps | E2 day0 | not recorded | SRP199550 | 0.00 |
| SRR12959218 | Polyps | Polyps | E2 day9 | not recorded | SRP199550 | 0.00 |
| SRR12959219 | Polyps | Polyps | E2 day9 | not recorded | SRP199550 | 0.00 |
| SRR12959220 | Polyps | Polyps | E2 day9 | not recorded | SRP199550 | 0.00 |
| SRR12959231 | Polyps | Polyps | E2 day3 | not recorded | SRP199550 | 0.00 |
| SRR12959232 | Polyps | Polyps | E2 day3 | not recorded | SRP199550 | 0.00 |
| SRR12959233 | Polyps | Polyps | E2 day3 | not recorded | SRP199550 | 0.00 |
| SRR27868158 | Polyps | Polyps | regeneration day6 | not recorded | SRP199550 | 0.00 |
| SRR27868159 | Polyps | Polyps | regeneration day6 | not recorded | SRP199550 | 0.00 |
| SRR27868160 | Polyps | Polyps | regeneration day6 | not recorded | SRP199550 | 0.00 |
| SRR27868165 | Polyps | Polyps | regeneration day3 | not recorded | SRP199550 | 0.00 |
| SRR27868174 | Polyps | Polyps | regeneration day39 | not recorded | SRP199550 | 0.00 |
| SRR27868175 | Polyps | Polyps | regeneration day39 | not recorded | SRP199550 | 0.00 |
| SRR27868176 | Polyps | Polyps | regeneration day3 | not recorded | SRP199550 | 0.00 |
| SRR27868177 | Polyps | Polyps | regeneration day39 | not recorded | SRP199550 | 0.00 |
| SRR27868178 | Polyps | Polyps | regeneration day36 | not recorded | SRP199550 | 0.00 |
| SRR27868179 | Polyps | Polyps | regeneration day36 | not recorded | SRP199550 | 0.00 |
| SRR27868180 | Polyps | Polyps | regeneration day36 | not recorded | SRP199550 | 0.00 |
| SRR27868181 | Polyps | Polyps | regeneration day33 | not recorded | SRP199550 | 0.00 |
| SRR27868182 | Polyps | Polyps | regeneration day33 | not recorded | SRP199550 | 0.00 |
| SRR27868183 | Polyps | Polyps | regeneration day33 | not recorded | SRP199550 | 0.00 |
| SRR27868184 | Polyps | Polyps | regeneration day30 | not recorded | SRP199550 | 0.00 |
| SRR27868185 | Polyps | Polyps | regeneration day30 | not recorded | SRP199550 | 0.00 |
| SRR27868186 | Polyps | Polyps | regeneration day30 | not recorded | SRP199550 | 0.00 |
| SRR27868187 | Polyps | Polyps | regeneration day3 | not recorded | SRP199550 | 0.00 |
| SRR27868188 | Polyps | Polyps | regeneration day27 | not recorded | SRP199550 | 0.00 |
| SRR27868189 | Polyps | Polyps | regeneration day27 | not recorded | SRP199550 | 0.00 |
| SRR27868190 | Polyps | Polyps | regeneration day27 | not recorded | SRP199550 | 0.00 |
| SRR27868191 | Polyps | Polyps | regeneration day24 | not recorded | SRP199550 | 0.00 |
| SRR27868192 | Polyps | Polyps | regeneration day24 | not recorded | SRP199550 | 0.00 |
| SRR27868193 | Polyps | Polyps | regeneration day24 | not recorded | SRP199550 | 0.00 |
| SRR27868194 | Polyps | Polyps | regeneration day21 | not recorded | SRP199550 | 0.00 |
| SRR27868195 | Polyps | Polyps | regeneration day21 | not recorded | SRP199550 | 0.00 |
| SRR27868196 | Polyps | Polyps | regeneration day21 | not recorded | SRP199550 | 0.00 |
| SRR27868197 | Polyps | Polyps | regeneration day18 | not recorded | SRP199550 | 0.00 |
| SRR27868198 | Polyps | Polyps | regeneration day0 | not recorded | SRP199550 | 0.00 |
| SRR27868199 | Polyps | Polyps | regeneration day18 | not recorded | SRP199550 | 0.00 |
| SRR27868200 | Polyps | Polyps | regeneration day18 | not recorded | SRP199550 | 0.00 |
| SRR27868201 | Polyps | Polyps | regeneration day15 | not recorded | SRP199550 | 0.00 |
| SRR27868202 | Polyps | Polyps | regeneration day15 | not recorded | SRP199550 | 0.00 |
| SRR27868203 | Polyps | Polyps | regeneration day15 | not recorded | SRP199550 | 0.00 |
| SRR27868204 | Polyps | Polyps | regeneration day12 | not recorded | SRP199550 | 0.00 |
| SRR27868205 | Polyps | Polyps | regeneration day12 | not recorded | SRP199550 | 0.00 |
| SRR27868206 | Polyps | Polyps | regeneration day12 | not recorded | SRP199550 | 0.00 |
| SRR27868207 | Polyps | Polyps | regeneration day9 | not recorded | SRP199550 | 0.00 |
| SRR27868208 | Polyps | Polyps | regeneration day9 | not recorded | SRP199550 | 0.00 |
| SRR27868209 | Polyps | Polyps | regeneration day0 | not recorded | SRP199550 | 0.00 |
| SRR27868210 | Polyps | Polyps | regeneration day0 | not recorded | SRP199550 | 0.00 |
| SRR27940222 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940224 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940225 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940226 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940227 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940228 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR27940229 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR9613488 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR9613516 | Polyps | Polyps | not recorded | not recorded | SRP199550 | 0.00 |
| SRR12995717 | Severed branch | Severed branch | regeneration day0 | not recorded | SRP199550 | 0.00 |
| SRR12996627 | Severed branch | Severed branch | regeneration day0 | not recorded | SRP199550 | 0.00 |
| SRR12996628 | Severed branch | Severed branch | regeneration High gene expression | not recorded | SRP199550 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (AMURI_TPM,
StringTie quantification over 82 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 muricata 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 muricata 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 muricata, 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.
| Dataset | Tissue / stage | Cells | Cell types | This gene | Marker of |
|---|---|---|---|---|---|
| AMURI_regen | Polyps · regeneration | 8,721 | 28 | unmapped | – |
A gene is in viewer when the dataset ships a per-cell expression vector for it; marker only means it is in the dataset’s ranked marker table but no vector was exported, so the atlas cannot draw it; not in this dataset means the dataset’s own gene-ID table does not list it, so no expression claim can be made for that dataset. unmapped is deliberately weaker still: the dataset has no gene-ID table on CnidoSite yet, so nothing is claimed in either direction. Where markers are listed, the numbers are log2 fold change and the percentage of cells of that type in which the gene was detected.
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 → |
