The protein encoded by this gene belongs to the NR1 subfamily of the nuclear receptor superfamily. The NR1 family members are key regulators of macrophage function, controlling transcriptional programs involved in lipid homeostasis and inflammation. This protein is highly expressed in visceral organs, including liver, kidney and intestine. It forms a heterodimer with retinoid X receptor (RXR), and regulates expression of target genes containing retinoid response elements. Studies in mice lacking this gene suggest that it may play an important role in the regulation of cholesterol homeostasis. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]
Transcription factors with Perturb-seq knockdown data for NR1H3. 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 = NR1H3 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 NR1H3, 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 |
|---|---|---|---|---|
| chr11:47,160,949–47,161,864 | 87.4 kb | Distal (>10kb) Multiome | 322 | |
| chr11:47,176,472–47,177,856 | 71.9 kb | Distal (>10kb) Multiome | 857 | |
| chr11:47,184,866–47,187,095 | 62.4 kb | Distal (>10kb) Multiome | 849 | |
| chr11:47,214,114–47,215,529 | 34.1 kb | Distal (>10kb) Multiome | 785 | |
| chr11:47,248,482–47,249,399 | 4 bp | At TSS Multiome | 1059 | |
| chr11:47,257,299–47,258,204 | 8.9 kb | Proximal (<10kb) Multiome | 519 | |
| chr11:47,259,310–47,259,960 | 10.7 kb | Distal (>10kb) Multiome | 270 | |
| chr11:47,268,988–47,270,613 | 20.9 kb | Distal (>10kb) Multiome | 884 | |
| chr11:47,354,896–47,355,720 | 106.4 kb | Distal (>10kb) Multiome | 670 | |
| chr11:47,399,791–47,400,763 | 151.4 kb | Distal (>10kb) Multiome | 450 | |
| chr11:47,407,671–47,409,059 | 159.5 kb | Distal (>10kb) Multiome | 986 | |
| chr11:47,425,998–47,427,263 | 177.6 kb | Distal (>10kb) Multiome | 879 | |
| chr11:47,508,005–47,509,036 | 259.6 kb | Distal (>10kb) Multiome | 73 | |
| chr11:47,552,255–47,553,700 | 304.3 kb | Distal (>10kb) Multiome | 834 |
Genomic view of the NR1H3 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.