At the nuclear envelope, the nuclear lamina and heterochromatin are adjacent to the inner nuclear membrane. The protein encoded by this gene binds DNA and is a component of heterochromatin. This protein also can bind lamin B receptor, an integral membrane protein found in the inner nuclear membrane. The dual binding functions of the encoded protein may explain the association of heterochromatin with the inner nuclear membrane. This protein binds histone H3 tails methylated at Lys-9 sites. This protein is also recruited to sites of ultraviolet-induced DNA damage and double-strand breaks. Two transcript variants encoding the same protein but differing in the 5' UTR, have been found for this gene.[provided by RefSeq, Mar 2011]
Transcription factors with Perturb-seq knockdown data for CBX3. 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 = CBX3 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 CBX3, 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 |
|---|---|---|---|---|
| chr7:25,950,166–25,951,811 | 250.4 kb | Distal (>10kb) Multiome | 777 | |
| chr7:26,151,798–26,154,281 | 49.5 kb | Distal (>10kb) Multiome | 635 | |
| chr7:26,199,573–26,202,470 | 738 bp | At TSS Multiome | 1167 | |
| chr7:26,291,673–26,292,388 | 90.2 kb | Distal (>10kb) Multiome | 647 | |
| chr7:26,375,964–26,377,507 | 175.3 kb | Distal (>10kb) Multiome | 698 | |
| chr7:26,397,280–26,399,477 | 196.8 kb | Distal (>10kb) Multiome | 678 |
Genomic view of the CBX3 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.