This gene encodes a member of the Bar subclass of homeobox transcription factors. Studies of the mouse and chick homolog suggest the encoded protein may play a role in developing teeth and craniofacial mesenchyme of neural crest origin. The protein may also be associated with differentiation of stomach epithelia. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for BARX1. 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 = BARX1 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 BARX1, 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 |
|---|---|---|---|---|
| chr9:93,827,082–93,828,691 | 127.7 kb | Distal (>10kb) Multiome | 373 | |
| chr9:93,948,645–93,949,108 | 6.3 kb | Proximal (<10kb) Multiome | 65 | |
| chr9:93,950,854–93,951,536 | 3.8 kb | Proximal (<10kb) | 171 | |
| chr9:93,953,015–93,953,398 | 2.0 kb | Proximal (<10kb) | 86 | |
| chr9:93,954,201–93,955,998 | 182 bp | At TSS Multiome | 228 | |
| chr9:93,958,349–93,958,850 | 3.0 kb | Proximal (<10kb) | 95 | |
| chr9:93,960,285–93,960,872 | 4.9 kb | Proximal (<10kb) | 124 | |
| chr9:93,963,050–93,963,233 | 7.7 kb | Proximal (<10kb) | 240 | |
| chr9:94,030,363–94,031,139 | 75.4 kb | Distal (>10kb) Multiome | 869 | |
| chr9:94,165,559–94,167,324 | 211.5 kb | Distal (>10kb) Multiome | 1085 | |
| chr9:94,250,394–94,250,997 | 295.5 kb | Distal (>10kb) Multiome | 81 |
Genomic view of the BARX1 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.