This gene belongs to the protocadherin gene family, a subfamily of the cadherin superfamily. This gene encodes a protein which contains 6 extracellular cadherin domains, a transmembrane domain and a cytoplasmic tail differing from those of the classical cadherins. Although its specific function is undetermined, the cadherin-related neuronal receptor is thought to play a role in the establishment and function of specific cell-cell connections in the brain. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for PCDH20. 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 = PCDH20 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 PCDH20, 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 |
|---|---|---|---|---|
| chr13:61,338,621–61,339,896 | 76.4 kb | Distal (>10kb) Multiome | 152 | |
| chr13:61,413,564–61,415,966 | 606 bp | At TSS Multiome | 405 | |
| chr13:61,420,778–61,421,216 | 4.9 kb | Proximal (<10kb) | 43 | |
| chr13:61,664,315–61,665,893 | 249.3 kb | Distal (>10kb) Multiome | 518 | |
| chr13:61,671,320–61,672,395 | 256.1 kb | Distal (>10kb) Multiome HiCAR | 177 |
Genomic view of the PCDH20 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.