This gene encodes a member of the ZIC family of C2H2-type zinc finger proteins. Members of this family are important during development. Aberrant expression of this gene is seen in medulloblastoma, a childhood brain tumor. This gene is closely linked to the gene encoding zinc finger protein of the cerebellum 4, a related family member on chromosome 3. This gene encodes a transcription factor that can bind and transactivate the apolipoprotein E gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for ZIC1. 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 = ZIC1 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 ZIC1, 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 |
|---|---|---|---|---|
| chr3:147,341,284–147,342,319 | 51.5 kb | Distal (>10kb) Multiome | 153 | |
| chr3:147,377,268–147,378,505 | 15.4 kb | Distal (>10kb) Multiome | 219 | |
| chr3:147,383,715–147,383,923 | 9.5 kb | Proximal (<10kb) | 42 | |
| chr3:147,384,080–147,385,652 | 8.5 kb | Proximal (<10kb) Multiome HiCAR | 161 | |
| chr3:147,387,708–147,388,496 | 4.9 kb | Proximal (<10kb) | 83 | |
| chr3:147,388,657–147,389,385 | 4.0 kb | Proximal (<10kb) | 108 | |
| chr3:147,389,823–147,390,190 | 3.2 kb | Proximal (<10kb) | 61 | |
| chr3:147,390,694–147,392,937 | 1.1 kb | Proximal (<10kb) Multiome | 431 | |
| chr3:147,393,089–147,393,978 | 168 bp | At TSS Multiome | 259 | |
| chr3:147,394,484–147,395,479 | 1.1 kb | Proximal (<10kb) | 203 | |
| chr3:147,395,609–147,398,664 | 4.0 kb | Proximal (<10kb) Multiome | 361 | |
| chr3:147,407,896–147,411,733 | 15.9 kb | Distal (>10kb) Multiome | 449 | |
| chr3:147,418,882–147,421,916 | 25.9 kb | Distal (>10kb) Multiome | 338 |
Genomic view of the ZIC1 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.