NAGA encodes the lysosomal enzyme alpha-N-acetylgalactosaminidase, which cleaves alpha-N-acetylgalactosaminyl moieties from glycoconjugates. Mutations in NAGA have been identified as the cause of Schindler disease types I and II (type II also known as Kanzaki disease). [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for NAGA. 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 = NAGA 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 NAGA, 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 |
|---|---|---|---|---|
| chr22:41,800,274–41,801,345 | 270.2 kb | Distal (>10kb) Multiome | 816 | |
| chr22:41,832,291–41,834,215 | 237.9 kb | Distal (>10kb) Multiome | 1023 | |
| chr22:41,845,927–41,846,489 | 224.7 kb | Distal (>10kb) Multiome | 271 | |
| chr22:41,909,821–41,910,788 | 160.5 kb | Distal (>10kb) Multiome | 251 | |
| chr22:41,913,915–41,914,497 | 156.6 kb | Distal (>10kb) Multiome | 143 | |
| chr22:41,914,624–41,915,454 | 155.8 kb | Distal (>10kb) Multiome | 273 | |
| chr22:41,919,501–41,920,436 | 150.8 kb | Distal (>10kb) Multiome | 337 | |
| chr22:41,926,076–41,926,820 | 144.5 kb | Distal (>10kb) Multiome | 442 | |
| chr22:41,945,821–41,947,304 | 123.9 kb | Distal (>10kb) Multiome | 896 | |
| chr22:41,957,553–41,958,332 | 112.9 kb | Distal (>10kb) Multiome | 456 | |
| chr22:41,976,503–41,977,084 | 94.0 kb | Distal (>10kb) Multiome | 294 | |
| chr22:42,070,303–42,071,253 | 27 bp | At TSS Multiome | 833 | |
| chr22:42,074,171–42,074,703 | 3.6 kb | Proximal (<10kb) Multiome | 178 | |
| chr22:42,079,194–42,080,293 | 9.0 kb | Proximal (<10kb) Multiome | 872 | |
| chr22:42,080,429–42,080,566 | 9.6 kb | Proximal (<10kb) | 123 | |
| chr22:42,090,032–42,091,609 | 20.1 kb | Distal (>10kb) Multiome | 910 | |
| chr22:42,269,385–42,271,172 | 199.9 kb | Distal (>10kb) Multiome | 751 | |
| chr22:42,343,251–42,344,201 | 272.8 kb | Distal (>10kb) Multiome | 220 | |
| chr22:42,344,438–42,344,933 | 274.0 kb | Distal (>10kb) Multiome | 162 | |
| chr22:42,365,301–42,366,142 | 294.7 kb | Distal (>10kb) Multiome | 197 | |
| chr22:42,368,263–42,369,908 | 298.5 kb | Distal (>10kb) Multiome | 592 | |
| chr22:42,499,840–42,501,072 | 429.6 kb | Distal (>10kb) Multiome HiCAR | 356 |
Genomic view of the NAGA 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.