This gene encodes a protein that functions as a transcriptional activator that binds specifically to non-methylated CpG motifs through its CXXC domain. The protein is a component of the SETD1 complex, regulates gene expression and is essential for vertebrate development. [provided by RefSeq, Sep 2015]
Transcription factors with Perturb-seq knockdown data for CXXC1. 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 = CXXC1 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 CXXC1, 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 |
|---|---|---|---|---|
| chr18:50,194,148–50,195,562 | 92.5 kb | Distal (>10kb) Multiome | 482 | |
| chr18:50,230,869–50,232,199 | 56.0 kb | Distal (>10kb) Multiome | 139 | |
| chr18:50,232,326–50,232,896 | 54.8 kb | Distal (>10kb) Multiome | 108 | |
| chr18:50,266,119–50,266,730 | 21.1 kb | Distal (>10kb) Multiome | 493 | |
| chr18:50,268,096–50,268,782 | 19.1 kb | Distal (>10kb) Multiome | 343 | |
| chr18:50,281,123–50,282,656 | 6.0 kb | Proximal (<10kb) Multiome | 877 | |
| chr18:50,287,072–50,288,411 | 237 bp | At TSS Multiome | 897 | |
| chr18:50,307,523–50,307,991 | 20.2 kb | Distal (>10kb) Multiome | 265 | |
| chr18:50,374,233–50,375,652 | 87.4 kb | Distal (>10kb) Multiome | 732 | |
| chr18:50,398,965–50,399,883 | 111.6 kb | Distal (>10kb) Multiome | 106 | |
| chr18:50,559,125–50,561,284 | 272.4 kb | Distal (>10kb) Multiome | 350 |
Genomic view of the CXXC1 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.