This gene is a member of the forkhead/winged helix transcription factor family. Checkpoints are eukaryotic DNA damage-inducible cell cycle arrests at G1 and G2. Checkpoint suppressor 1 suppresses multiple yeast checkpoint mutations including mec1, rad9, rad53 and dun1 by activating a MEC1-independent checkpoint pathway. Alternative splicing is observed at the locus, resulting in distinct isoforms. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for FOXN3. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = FOXN3 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of FOXN3, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr14:89,415,935–89,418,229 | 201.8 kb | Distal (>10kb) Multiome | 866 | |
| chr14:89,440,342–89,442,019 | 177.7 kb | Distal (>10kb) Multiome | 280 | |
| chr14:89,617,900–89,618,219 | 929 bp | At TSS | 160 | |
| chr14:89,618,847–89,619,573 | 73 bp | At TSS Multiome | 554 | |
| chr14:89,625,899–89,626,322 | 6.8 kb | Proximal (<10kb) | 56 | |
| chr14:89,626,446–89,626,831 | 7.3 kb | Proximal (<10kb) | 39 | |
| chr14:89,701,135–89,702,212 | 82.5 kb | Distal (>10kb) Multiome | 549 | |
| chr14:89,773,515–89,774,088 | 154.7 kb | Distal (>10kb) Multiome | 357 | |
| chr14:89,911,311–89,911,904 | 292.4 kb | Distal (>10kb) Multiome | 338 |
Genomic view of the FOXN3 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.