This gene encodes a member of the pre-B cell leukemia transcription factor family. These proteins are homeobox proteins that play critical roles in embryonic development and cellular differentiation both as Hox cofactors and through Hox-independent pathways. The encoded protein contains a homeobox DNA-binding domain, but specific functions of the protein have not been determined. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, May 2011]
Transcription factors with Perturb-seq knockdown data for PBX4. 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 = PBX4 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 PBX4, 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 |
|---|---|---|---|---|
| chr19:19,320,030–19,321,531 | 298.0 kb | Distal (>10kb) Multiome | 839 | |
| chr19:19,384,944–19,386,424 | 233.1 kb | Distal (>10kb) Multiome | 788 | |
| chr19:19,405,072–19,406,890 | 213.0 kb | Distal (>10kb) Multiome | 1014 | |
| chr19:19,461,886–19,462,726 | 156.4 kb | Distal (>10kb) Multiome | 345 | |
| chr19:19,515,735–19,516,510 | 102.5 kb | Distal (>10kb) Multiome | 824 | |
| chr19:19,532,119–19,532,674 | 86.3 kb | Distal (>10kb) Multiome | 405 | |
| chr19:19,538,087–19,538,726 | 80.4 kb | Distal (>10kb) Multiome | 255 | |
| chr19:19,539,681–19,541,846 | 77.3 kb | Distal (>10kb) Multiome HiCAR | 352 | |
| chr19:19,575,151–19,576,000 | 43.1 kb | Distal (>10kb) Multiome | 128 | |
| chr19:19,618,285–19,619,315 | 102 bp | At TSS Multiome | 414 | |
| chr19:19,627,596–19,629,138 | 9.8 kb | Proximal (<10kb) Multiome | 543 | |
| chr19:19,637,337–19,638,344 | 19.0 kb | Distal (>10kb) Multiome | 153 | |
| chr19:19,643,155–19,644,142 | 25.1 kb | Distal (>10kb) Multiome | 595 | |
| chr19:19,663,091–19,664,414 | 45.2 kb | Distal (>10kb) Multiome | 848 | |
| chr19:19,668,196–19,669,404 | 50.0 kb | Distal (>10kb) Multiome | 778 | |
| chr19:19,732,628–19,733,489 | 114.4 kb | Distal (>10kb) Multiome | 701 | |
| chr19:19,775,960–19,777,126 | 157.9 kb | Distal (>10kb) Multiome | 738 | |
| chr19:19,860,773–19,861,447 | 242.5 kb | Distal (>10kb) Multiome | 112 | |
| chr19:19,865,643–19,866,347 | 247.2 kb | Distal (>10kb) Multiome | 685 | |
| chr19:19,866,439–19,867,170 | 248.3 kb | Distal (>10kb) Multiome | 306 | |
| chr19:19,900,670–19,901,891 | 282.2 kb | Distal (>10kb) Multiome | 405 |
Genomic view of the PBX4 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.