This gene encodes a member of a PHD finger-containing gene family. This gene may function as a transcription factor and may be involved in glioblastomas development. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2014]
Transcription factors with Perturb-seq knockdown data for PHF3. 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 = PHF3 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 PHF3, 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 |
|---|---|---|---|---|
| chr6:63,571,631–63,574,599 | 63.4 kb | Distal (>10kb) Multiome | 1258 | |
| chr6:63,598,023–63,599,017 | 37.2 kb | Distal (>10kb) Multiome | 665 | |
| chr6:63,632,687–63,632,857 | 3.0 kb | Proximal (<10kb) | 8 | |
| chr6:63,634,548–63,637,008 | 1.1 kb | Proximal (<10kb) Multiome | 1227 | |
| chr6:63,644,891–63,645,318 | 9.1 kb | Proximal (<10kb) | 110 | |
| chr6:63,788,163–63,789,367 | 153.0 kb | Distal (>10kb) Multiome | 152 |
Genomic view of the PHF3 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.