This gene is a member of the GLI-similar zinc finger protein family and encodes a nuclear transcription factor with five C2H2-type zinc finger domains. The protein encoded by this gene is widely expressed at low levels in the neural tube and peripheral nervous system and likely promotes neuronal differentiation. It is abundantly expressed in the kidney and may have a role in the regulation of kidney morphogenesis. p120 regulates the expression level of this protein and induces the cleavage of this protein's C-terminal zinc finger domain. This protein also promotes the nuclear translocation of p120. Mutations in this gene cause nephronophthisis (NPHP), an autosomal recessive kidney disease characterized by tubular basement membrane disruption, interstitial lymphohistiocytic cell infiltration, and development of cysts at the corticomedullary border of the kidneys.[provided by RefSeq, Jan 2010]
Transcription factors with Perturb-seq knockdown data for GLIS2. 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 = GLIS2 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 GLIS2, 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 |
|---|---|---|---|---|
| chr16:4,115,028–4,117,244 | 199.5 kb | Distal (>10kb) Multiome | 659 | |
| chr16:4,183,149–4,184,737 | 132.8 kb | Distal (>10kb) Multiome | 944 | |
| chr16:4,253,312–4,254,436 | 62.1 kb | Distal (>10kb) Multiome | 960 | |
| chr16:4,263,483–4,264,402 | 52.2 kb | Distal (>10kb) Multiome | 258 | |
| chr16:4,271,070–4,274,312 | 42.9 kb | Distal (>10kb) Multiome | 1130 | |
| chr16:4,293,681–4,294,322 | 22.1 kb | Distal (>10kb) Multiome | 385 | |
| chr16:4,307,236–4,308,275 | 8.2 kb | Proximal (<10kb) Multiome | 635 | |
| chr16:4,309,629–4,310,195 | 6.1 kb | Proximal (<10kb) Multiome | 351 | |
| chr16:4,313,901–4,314,100 | 2.0 kb | Proximal (<10kb) | 470 | |
| chr16:4,315,041–4,316,747 | 264 bp | At TSS Multiome | 520 | |
| chr16:4,327,446–4,328,634 | 12.2 kb | Distal (>10kb) Multiome HiCAR | 495 | |
| chr16:4,350,579–4,351,773 | 35.3 kb | Distal (>10kb) Multiome | 674 | |
| chr16:4,371,473–4,372,791 | 55.8 kb | Distal (>10kb) Multiome | 617 | |
| chr16:4,402,485–4,403,104 | 86.7 kb | Distal (>10kb) Multiome | 450 | |
| chr16:4,415,818–4,417,201 | 100.6 kb | Distal (>10kb) Multiome | 681 | |
| chr16:4,425,392–4,426,322 | 109.7 kb | Distal (>10kb) Multiome | 881 | |
| chr16:4,474,111–4,474,929 | 158.5 kb | Distal (>10kb) Multiome | 626 | |
| chr16:4,476,027–4,477,237 | 160.3 kb | Distal (>10kb) Multiome | 841 | |
| chr16:4,537,639–4,538,998 | 222.6 kb | Distal (>10kb) Multiome | 1087 | |
| chr16:4,613,912–4,617,164 | 300.4 kb | Distal (>10kb) Multiome | 1079 |
Genomic view of the GLIS2 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.