This gene encodes a member of the homeobox family, subfamily SIX. The drosophila homolog is a nuclear homeoprotein required for eye development. Studies in mouse show that this gene product functions as a transcription factor, and may have a role in the differentiation or maturation of neuronal cells. [provided by RefSeq, May 2010]
Transcription factors with Perturb-seq knockdown data for SIX4. 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 = SIX4 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 SIX4, 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 |
|---|---|---|---|---|
| chr14:60,485,178–60,486,252 | 238.4 kb | Distal (>10kb) Multiome | 378 | |
| chr14:60,508,535–60,510,247 | 215.3 kb | Distal (>10kb) Multiome | 245 | |
| chr14:60,514,579–60,516,786 | 209.4 kb | Distal (>10kb) Multiome | 517 | |
| chr14:60,637,200–60,638,337 | 86.5 kb | Distal (>10kb) Multiome | 201 | |
| chr14:60,641,851–60,643,218 | 81.9 kb | Distal (>10kb) Multiome | 222 | |
| chr14:60,648,454–60,651,189 | 73.5 kb | Distal (>10kb) Multiome | 790 | |
| chr14:60,655,802–60,657,953 | 67.1 kb | Distal (>10kb) Multiome | 631 | |
| chr14:60,720,299–60,724,768 | 17 bp | At TSS Multiome | 933 | |
| chr14:60,726,393–60,726,699 | 2.0 kb | Proximal (<10kb) | 2 | |
| chr14:60,726,940–60,727,551 | 2.6 kb | Proximal (<10kb) | 16 | |
| chr14:60,980,625–60,981,938 | 256.8 kb | Distal (>10kb) Multiome HiCAR | 866 |
Genomic view of the SIX4 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.