This gene encodes a classical cadherin and member of the cadherin superfamily. Alternative splicing results in multiple transcript variants, at least one of which encodes a preproprotein is proteolytically processed to generate a calcium-dependent cell adhesion molecule and glycoprotein. This protein plays a role in the establishment of left-right asymmetry, development of the nervous system and the formation of cartilage and bone. [provided by RefSeq, Nov 2015]
Transcription factors with Perturb-seq knockdown data for CDH2. 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 = CDH2 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 CDH2, 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 |
|---|---|---|---|---|
| chr18:27,921,831–27,922,687 | 254.7 kb | Distal (>10kb) Multiome | 148 | |
| chr18:28,009,472–28,010,385 | 167.3 kb | Distal (>10kb) Multiome | 113 | |
| chr18:28,064,840–28,066,123 | 111.8 kb | Distal (>10kb) Multiome | 285 | |
| chr18:28,107,534–28,108,565 | 69.1 kb | Distal (>10kb) Multiome | 239 | |
| chr18:28,175,149–28,178,989 | 8 bp | At TSS Multiome | 791 | |
| chr18:28,181,758–28,182,105 | 4.7 kb | Proximal (<10kb) | 15 | |
| chr18:28,183,482–28,184,056 | 6.5 kb | Proximal (<10kb) | 119 | |
| chr18:28,184,868–28,185,825 | 7.8 kb | Proximal (<10kb) | 85 | |
| chr18:28,350,753–28,351,840 | 174.0 kb | Distal (>10kb) Multiome | 76 |
Genomic view of the CDH2 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.