This gene encodes a member of the NipSnap family of proteins that may be involved in vesicular transport. The encoded protein is localized to mitochondria and plays a role in oxidative phosphorylation. A pseudogene of this gene is located on the long arm of chromosome 2. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Feb 2011]
Transcription factors with Perturb-seq knockdown data for NIPSNAP2. 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 = NIPSNAP2 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 NIPSNAP2, 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 |
|---|---|---|---|---|
| chr7:55,886,966–55,887,754 | 77.1 kb | Distal (>10kb) Multiome | 546 | |
| chr7:55,951,547–55,952,549 | 12.7 kb | Distal (>10kb) Multiome | 801 | |
| chr7:55,964,099–55,965,278 | 102 bp | At TSS Multiome | 738 | |
| chr7:56,033,660–56,034,707 | 69.6 kb | Distal (>10kb) Multiome | 673 | |
| chr7:56,051,159–56,052,300 | 87.0 kb | Distal (>10kb) Multiome | 882 | |
| chr7:56,063,656–56,065,393 | 99.7 kb | Distal (>10kb) Multiome | 926 | |
| chr7:56,074,109–56,074,780 | 109.9 kb | Distal (>10kb) Multiome | 423 | |
| chr7:56,106,168–56,106,786 | 142.0 kb | Distal (>10kb) Multiome | 866 |
Genomic view of the NIPSNAP2 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.