This gene is a member of the caudal-related homeobox transcription factor gene family. The encoded protein is a major regulator of intestine-specific genes involved in cell growth an differentiation. This protein also plays a role in early embryonic development of the intestinal tract. Aberrant expression of this gene is associated with intestinal inflammation and tumorigenesis. [provided by RefSeq, Jan 2012]
Transcription factors with Perturb-seq knockdown data for CDX2. 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 = CDX2 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 CDX2, 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 |
|---|---|---|---|---|
| chr13:27,960,317–27,961,430 | 7.9 kb | Proximal (<10kb) | 665 | |
| chr13:27,961,712–27,962,000 | 7.3 kb | Proximal (<10kb) | 60 | |
| chr13:27,965,744–27,967,347 | 2.0 kb | Proximal (<10kb) | 344 | |
| chr13:27,968,317–27,969,555 | at TSS | At TSS | 369 | |
| chr13:27,978,000–27,978,930 | 8.7 kb | Proximal (<10kb) | 128 |
Genomic view of the CDX2 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.