Predicted to enable GTPase activator activity. Involved in cellular response to amino acid starvation and negative regulation of TORC1 signaling. Part of GATOR1 complex. Is active in lysosomal membrane. Implicated in familial focal epilepsy with variable foci 3. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for NPRL3. 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 = NPRL3 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 NPRL3, 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 |
|---|---|---|---|---|
| chr16:52,954–54,208 | 85.0 kb | Distal (>10kb) Multiome | 950 | |
| chr16:71,378–73,062 | 67.2 kb | Distal (>10kb) Multiome | 639 | |
| chr16:77,240–78,636 | 60.5 kb | Distal (>10kb) Multiome | 685 | |
| chr16:138,082–138,402 | 274 bp | At TSS | 256 | |
| chr16:138,551–139,186 | 7 bp | At TSS Multiome | 674 | |
| chr16:164,983–166,147 | 26.4 kb | Distal (>10kb) Multiome | 234 | |
| chr16:180,313–181,713 | 42.8 kb | Distal (>10kb) Multiome | 994 | |
| chr16:228,869–229,598 | 90.6 kb | Distal (>10kb) Multiome | 1035 | |
| chr16:234,152–235,669 | 96.1 kb | Distal (>10kb) Multiome | 908 | |
| chr16:351,804–354,436 | 214.3 kb | Distal (>10kb) Multiome | 654 | |
| chr16:378,999–379,813 | 240.7 kb | Distal (>10kb) Multiome | 225 | |
| chr16:380,836–382,614 | 243.3 kb | Distal (>10kb) Multiome | 634 | |
| chr16:383,438–384,218 | 245.2 kb | Distal (>10kb) Multiome | 342 | |
| chr16:396,893–397,640 | 258.8 kb | Distal (>10kb) Multiome | 496 | |
| chr16:401,380–402,199 | 263.2 kb | Distal (>10kb) Multiome | 818 | |
| chr16:424,888–426,136 | 286.9 kb | Distal (>10kb) Multiome | 752 |
Genomic view of the NPRL3 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.