Calcium-dependent membrane-binding proteins may regulate molecular events at the interface of the cell membrane and cytoplasm. This gene encodes a calcium-dependent protein that also contains two N-terminal type II C2 domains and an integrin A domain-like sequence in the C-terminus. However, the encoded protein does not contain a predicted signal sequence or transmembrane domains. This protein has a broad tissue distribution and it may function in membrane trafficking. This gene and the gene for RNA binding motif protein 12 overlap at map location 20q11.21. Alternate splicing results in multiple transcript variants encoding different proteins. [provided by RefSeq, Aug 2008]
Transcription factors with Perturb-seq knockdown data for CPNE1. 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 = CPNE1 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 CPNE1, 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 |
|---|---|---|---|---|
| chr20:35,454,521–35,455,845 | 209.8 kb | Distal (>10kb) Multiome | 1059 | |
| chr20:35,539,672–35,540,321 | 124.9 kb | Distal (>10kb) Multiome | 311 | |
| chr20:35,541,280–35,542,685 | 122.8 kb | Distal (>10kb) Multiome | 849 | |
| chr20:35,600,739–35,601,999 | 63.3 kb | Distal (>10kb) Multiome | 575 | |
| chr20:35,604,921–35,605,589 | 59.6 kb | Distal (>10kb) Multiome | 27 | |
| chr20:35,615,559–35,617,919 | 47.1 kb | Distal (>10kb) Multiome | 1169 | |
| chr20:35,618,589–35,619,849 | 45.4 kb | Distal (>10kb) Multiome | 865 | |
| chr20:35,664,428–35,665,171 | 18 bp | At TSS Multiome | 1018 | |
| chr20:35,698,724–35,699,893 | 34.5 kb | Distal (>10kb) Multiome | 1035 | |
| chr20:35,741,564–35,742,903 | 77.5 kb | Distal (>10kb) Multiome | 1145 | |
| chr20:35,769,101–35,769,560 | 104.4 kb | Distal (>10kb) Multiome | 415 | |
| chr20:35,771,622–35,772,463 | 107.2 kb | Distal (>10kb) Multiome | 998 | |
| chr20:35,953,663–35,955,230 | 289.7 kb | Distal (>10kb) Multiome | 1166 |
Genomic view of the CPNE1 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.