This gene encodes a member of the cytochrome P450 superfamily of enzymes. The cytochrome P450 proteins are monooxygenases which catalyze many reactions involved in drug metabolism and synthesis of cholesterol, steroids and other lipids. This endoplasmic reticulum protein is involved in the conversion of cholesterol to bile acids. Its substrates include the oxysterols 25-hydroxycholesterol, 27-hydroxycholesterol and 24-hydroxycholesterol. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]
Transcription factors with Perturb-seq knockdown data for CYP39A1. 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 = CYP39A1 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 CYP39A1, 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 |
|---|---|---|---|---|
| chr6:46,490,464–46,492,348 | 161.5 kb | Distal (>10kb) Multiome | 545 | |
| chr6:46,652,280–46,653,567 | 116 bp | At TSS Multiome | 662 | |
| chr6:46,655,842–46,656,063 | 3.0 kb | Proximal (<10kb) | 74 | |
| chr6:46,733,963–46,735,949 | 81.4 kb | Distal (>10kb) Multiome | 489 | |
| chr6:46,749,672–46,750,206 | 97.1 kb | Distal (>10kb) Multiome | 168 | |
| chr6:46,848,790–46,849,672 | 196.3 kb | Distal (>10kb) Multiome | 504 |
Genomic view of the CYP39A1 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.