This gene encodes a possible magnesium transporter. This gene is located adjacent to the imprinted domain in the Prader-Willi syndrome deletion region of chromosome 15. Alternate splicing results in multiple transcript variants. Pseudogenes of this gene are found on chromosomes 3, 7 and 21.[provided by RefSeq, May 2010]
Transcription factors with Perturb-seq knockdown data for NIPA2. 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 = NIPA2 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 NIPA2, 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 |
|---|---|---|---|---|
| chr15:22,785,810–22,787,689 | 52.1 kb | Distal (>10kb) Multiome | 766 | |
| chr15:22,837,517–22,839,152 | 132 bp | At TSS Multiome | 835 | |
| chr15:22,839,918–22,840,245 | 1.2 kb | Proximal (<10kb) | 191 | |
| chr15:22,840,394–22,840,658 | 1.7 kb | Proximal (<10kb) | 68 | |
| chr15:22,892,318–22,892,975 | 53.9 kb | Distal (>10kb) Multiome | 115 | |
| chr15:22,979,047–22,981,179 | 141.8 kb | Distal (>10kb) Multiome | 677 | |
| chr15:23,038,867–23,040,195 | 200.9 kb | Distal (>10kb) Multiome | 766 |
Genomic view of the NIPA2 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.