This gene encodes a member of the SOX (SRY-related HMG-box) family of transcription factors involved in the regulation of embryonic development and in the determination of the cell fate. The encoded protein may act as a transcriptional regulator after forming a protein complex with other proteins. Mutations in this gene have been associated with X-linked cognitive disability with growth hormone deficiency. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SOX3. 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 = SOX3 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 SOX3, 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 |
|---|---|---|---|---|
| chrX:140,501,358–140,501,578 | 3.5 kb | Proximal (<10kb) | 24 | |
| chrX:140,501,926–140,502,196 | 2.9 kb | Proximal (<10kb) | 24 | |
| chrX:140,503,644–140,505,339 | at TSS | At TSS | 233 | |
| chrX:140,505,441–140,505,678 | 372 bp | At TSS | 46 | |
| chrX:140,507,747–140,508,370 | 2.7 kb | Proximal (<10kb) | 176 | |
| chrX:140,509,552–140,510,579 | 4.5 kb | Proximal (<10kb) | 52 |
Genomic view of the SOX3 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.