Genomic Location: xfSc0001323:2089...14971
NR annotation: KAJ7378720.1, Hepatocyte nuclear factor 1-alpha [Desmophyllum pertusum]
Species Galaxea fascicularis · all data for this species · gene families
| CDS |
| gfas1.m1.20366.m1 |
| Transcript |
| gfas1.m1.20366.m1 |
| Protein |
| gfas1.m1.20366.m1 |
| UniProt accession | Description |
|---|---|
| Q90867 | Hepatocyte nuclear factor 1-alpha OS=Gallus gallus OX=9031 GN=HNF1A PE=2 SV=1 |
| P22361 | Hepatocyte nuclear factor 1-alpha OS=Mus musculus OX=10090 GN=Hnf1a PE=1 SV=2 |
| P15257 | Hepatocyte nuclear factor 1-alpha OS=Rattus norvegicus OX=10116 GN=Hnf1a PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0008925 (this species only) · gene tree & orthology |
| Transcription factor family | Homeobox · all TF in this species |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF04814 all species → | HNF-1_N | Hepatocyte nuclear factor 1 (HNF-1), N terminus | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR010982 all species → | Homologous_superfamily | Lambda repressor-like, DNA-binding domain superfamily | Interproscan |
| IPR039066 all species → | Family | Hepatocyte nuclear factor 1 | Interproscan |
| IPR001356 all species → | Domain | Homeobox domain | Interproscan |
| IPR006899 all species → | Domain | Hepatocyte nuclear factor 1, N-terminal | Interproscan |
| IPR044869 all species → | Domain | HNF-1, POU-specific (POUs) atypical domain | Interproscan |
| IPR009057 all species → | Homologous_superfamily | Homeobox-like domain superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11568 all species → | HEPATOCYTE NUCLEAR FACTOR 1 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0003677 all species → | Molecular Function | DNA binding | 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:0001889 all species → | Biological Process | liver development | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0006357 all species → | Biological Process | regulation of transcription by RNA polymerase II | Interproscan |
| GO:0030073 all species → | Biological Process | insulin secretion | Interproscan |
| GO:0031016 all species → | Biological Process | pancreas development | Interproscan |
| GO:0045893 all species → | Biological Process | positive regulation of DNA-templated transcription | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K08036 | TCF1, HNF1A; transcription factor 1, hepatocyte nuclear factor 1-alpha | - | Transcription factors | ko03000 | deepkoala |
Transcript abundance of gfas1.m1.20366.m1 across 22 RNA-seq samples of Galaxea fascicularis. 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 holosome · Control | 7 | 4 | 5.28 | 9.96 | |
| coral holosome · 30ic treatment | 6 | 5 | 14.81 | 40.54 | |
| coral holosome · Prometryn (herbicidess) treatment | 5 | 2 | 4.38 | 13.40 | |
| coral holosome · Prometryn (herbicidess) and 30ic treatment | 4 | 3 | 7.90 | 14.90 |
| SRA run | Condition | Tissue | Developmental stage | Treatment | Study | TPM |
|---|---|---|---|---|---|---|
| SRR27118491 | coral holosome · Control | coral holosome | not recorded | Control | SRP476288 | 9.96 |
| SRR27118486 | coral holosome · Control | coral holosome | not recorded | Control | SRP476288 | 9.96 |
| SRR27118480 | coral holosome · Control | coral holosome | not recorded | Control | SRP476288 | 9.74 |
| SRR27118487 | coral holosome · Control | coral holosome | not recorded | Control | SRP476288 | 7.29 |
| SRR27118485 | coral holosome · Control | coral holosome | not recorded | Control | SRP476288 | 0.00 |
| SRR27118488 | coral holosome · Control | coral holosome | not recorded | Control | SRP476288 | 0.00 |
| SRR27118492 | coral holosome · Control | coral holosome | not recorded | Control | SRP476288 | 0.00 |
| SRR27118468 | coral holosome · 30ic treatment | coral holosome | not recorded | 30ic treatment | SRP476288 | 40.54 |
| SRR27118478 | coral holosome · 30ic treatment | coral holosome | not recorded | 30ic treatment | SRP476288 | 13.71 |
| SRR27118466 | coral holosome · 30ic treatment | coral holosome | not recorded | 30ic treatment | SRP476288 | 13.36 |
| SRR27118479 | coral holosome · 30ic treatment | coral holosome | not recorded | 30ic treatment | SRP476288 | 10.88 |
| SRR27118476 | coral holosome · 30ic treatment | coral holosome | not recorded | 30ic treatment | SRP476288 | 10.39 |
| SRR27118477 | coral holosome · 30ic treatment | coral holosome | not recorded | 30ic treatment | SRP476288 | 0.00 |
| SRR27118469 | coral holosome · Prometryn (herbicidess) treatment | coral holosome | not recorded | Prometryn (herbicidess) treatment | SRP476288 | 13.40 |
| SRR27118481 | coral holosome · Prometryn (herbicidess) treatment | coral holosome | not recorded | Prometryn (herbicidess) treatment | SRP476288 | 8.52 |
| SRR27118482 | coral holosome · Prometryn (herbicidess) treatment | coral holosome | not recorded | Prometryn (herbicidess) treatment | SRP476288 | 0.00 |
| SRR27118483 | coral holosome · Prometryn (herbicidess) treatment | coral holosome | not recorded | Prometryn (herbicidess) treatment | SRP476288 | 0.00 |
| SRR27118484 | coral holosome · Prometryn (herbicidess) treatment | coral holosome | not recorded | Prometryn (herbicidess) treatment | SRP476288 | 0.00 |
| SRR27118475 | coral holosome · Prometryn (herbicidess) and 30ic treatment | coral holosome | not recorded | Prometryn (herbicidess) and 30ic treatment | SRP476288 | 14.90 |
| SRR27118490 | coral holosome · Prometryn (herbicidess) and 30ic treatment | coral holosome | not recorded | Prometryn (herbicidess) and 30ic treatment | SRP476288 | 8.68 |
| SRR27118472 | coral holosome · Prometryn (herbicidess) and 30ic treatment | coral holosome | not recorded | Prometryn (herbicidess) and 30ic treatment | SRP476288 | 8.00 |
| SRR27118489 | coral holosome · Prometryn (herbicidess) and 30ic treatment | coral holosome | not recorded | Prometryn (herbicidess) and 30ic treatment | SRP476288 | 0.00 |
Source: CnidoSite RNA-seq expression matrices (GFASC_TPM,
StringTie quantification over 22 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 Galaxea fascicularis 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 | 23 | gfas1.m1.1917.m1 | 0.962834126050507 |
| Negatively correlated | 13 | gfas1.m1.4801.m1 | -0.824713686922615 |
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 Galaxea fascicularis, 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. | 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 → |
