This gene encodes a protein containing a PHD (plant homeodomain) type zinc finger. This gene has been identified in some studies as a candidate gene for asthma. Naturally-occurring readthrough transcription may occur from the upstream SETDB2 (SET domain bifurcated 2) gene to this locus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016]
Transcription factors with Perturb-seq knockdown data for PHF11. 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 = PHF11 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 PHF11, 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 |
|---|---|---|---|---|
| chr13:49,218,368–49,219,071 | 277.5 kb | Distal (>10kb) Multiome | 51 | |
| chr13:49,219,748–49,221,361 | 276.0 kb | Distal (>10kb) Multiome | 441 | |
| chr13:49,247,525–49,248,779 | 248.3 kb | Distal (>10kb) Multiome | 752 | |
| chr13:49,280,990–49,281,662 | 214.9 kb | Distal (>10kb) Multiome | 111 | |
| chr13:49,443,422–49,445,325 | 52.1 kb | Distal (>10kb) Multiome | 929 | |
| chr13:49,495,326–49,496,757 | 95 bp | At TSS Multiome | 729 | |
| chr13:49,559,958–49,561,357 | 64.6 kb | Distal (>10kb) Multiome | 297 | |
| chr13:49,584,820–49,586,364 | 89.4 kb | Distal (>10kb) Multiome | 809 | |
| chr13:49,628,213–49,628,711 | 132.2 kb | Distal (>10kb) Multiome | 271 | |
| chr13:49,635,533–49,636,248 | 139.6 kb | Distal (>10kb) Multiome | 74 | |
| chr13:49,664,328–49,664,981 | 168.5 kb | Distal (>10kb) Multiome | 75 | |
| chr13:49,690,816–49,691,882 | 195.2 kb | Distal (>10kb) Multiome | 847 | |
| chr13:49,791,339–49,793,749 | 296.6 kb | Distal (>10kb) Multiome | 930 |
Genomic view of the PHF11 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.