This gene encodes a member of the NipSnap family of proteins that may be involved in vesicular transport. A similar protein in mice inhibits the calcium channel TRPV6, and is also localized to the inner mitochondrial membrane where it may play a role in mitochondrial DNA maintenance. A pseudogene of this gene is located on the short arm of chromosome 17. 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 NIPSNAP1. 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 = NIPSNAP1 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 NIPSNAP1, 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 |
|---|---|---|---|---|
| chr22:29,304,664–29,307,808 | 274.2 kb | Distal (>10kb) Multiome | 839 | |
| chr22:29,313,065–29,313,784 | 267.8 kb | Distal (>10kb) Multiome | 274 | |
| chr22:29,315,074–29,316,064 | 265.5 kb | Distal (>10kb) Multiome | 242 | |
| chr22:29,388,161–29,388,971 | 192.5 kb | Distal (>10kb) Multiome | 740 | |
| chr22:29,431,916–29,432,715 | 148.8 kb | Distal (>10kb) Multiome | 14 | |
| chr22:29,470,132–29,470,844 | 110.7 kb | Distal (>10kb) Multiome | 437 | |
| chr22:29,480,003–29,481,437 | 100.1 kb | Distal (>10kb) Multiome | 384 | |
| chr22:29,553,345–29,553,988 | 27.4 kb | Distal (>10kb) Multiome | 837 | |
| chr22:29,580,084–29,581,520 | 19 bp | At TSS Multiome | 856 | |
| chr22:29,603,006–29,604,162 | 22.4 kb | Distal (>10kb) Multiome | 803 | |
| chr22:29,766,399–29,767,654 | 186.0 kb | Distal (>10kb) Multiome | 837 | |
| chr22:29,837,985–29,838,559 | 257.2 kb | Distal (>10kb) Multiome | 690 | |
| chr22:30,079,923–30,080,552 | 499.2 kb | Distal (>10kb) Multiome HiCAR | 167 |
Genomic view of the NIPSNAP1 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.