This gene encodes a transcription factor with multiple homeodomains and zinc finger motifs, and regulates myogenic and neuronal differentiation. The encoded protein suppresses expression of the alpha-fetoprotein gene by binding to an AT-rich enhancer motif. The protein has also been shown to negatively regulate c-Myb, and transactivate the cell cycle inhibitor cyclin-dependent kinase inhibitor 1A (also known as p21CIP1). This gene is reported to function as a tumor suppressor in several cancers, and sequence variants of this gene are also associated with atrial fibrillation. Multiple transcript variants expressed from alternate promoters and encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2009]
Transcription factors with Perturb-seq knockdown data for ZFHX3. 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 = ZFHX3 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 ZFHX3, 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 |
|---|---|---|---|---|
| chr16:72,202,429–72,203,074 | 845.3 kb | Distal (>10kb) Multiome HiCAR | 160 | |
| chr16:73,032,675–73,033,995 | 14.8 kb | Distal (>10kb) Multiome | 364 | |
| chr16:73,036,117–73,036,918 | 11.5 kb | Distal (>10kb) Multiome | 282 | |
| chr16:73,040,101–73,040,565 | 7.7 kb | Proximal (<10kb) Multiome | 212 | |
| chr16:73,047,442–73,048,713 | 31 bp | At TSS Multiome | 817 | |
| chr16:73,053,434–73,053,835 | 5.3 kb | Proximal (<10kb) | 508 | |
| chr16:73,057,603–73,058,459 | 9.5 kb | Proximal (<10kb) | 451 | |
| chr16:73,058,597–73,059,239 | 10.8 kb | Distal (>10kb) Multiome | 385 | |
| chr16:73,062,984–73,063,568 | 3.8 kb | Proximal (<10kb) | 135 | |
| chr16:73,064,702–73,065,210 | 5.5 kb | Proximal (<10kb) | 146 | |
| chr16:73,065,939–73,067,051 | 6.7 kb | Proximal (<10kb) | 159 | |
| chr16:73,070,518–73,071,019 | 22.6 kb | Distal (>10kb) Multiome | 743 |
Genomic view of the ZFHX3 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.