This gene produces a long non-coding RNA that functions as a negative regulator of cell differentiation. This transcript associates with enhancer of zeste homolog 2 to repress expression of the runt related transcription factor 2 gene. Increased expression of this transcript may be associated with cancer. Alternatively spliced transcript variants have been observed. [provided by RefSeq, Dec 2016]
Transcription factors with Perturb-seq knockdown data for DANCR. 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 = DANCR 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 DANCR, 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 |
|---|---|---|---|---|
| chr4:52,657,281–52,658,511 | 54.5 kb | Distal (>10kb) Multiome | 230 | |
| chr4:52,658,663–52,660,293 | 53.1 kb | Distal (>10kb) Multiome | 590 | |
| chr4:52,711,775–52,713,336 | 61 bp | At TSS Multiome | 936 | |
| chr4:52,716,767–52,717,011 | 4.3 kb | Proximal (<10kb) | 50 | |
| chr4:52,717,160–52,717,485 | 4.7 kb | Proximal (<10kb) | 16 | |
| chr4:52,718,125–52,718,453 | 5.7 kb | Proximal (<10kb) | 46 | |
| chr4:52,721,591–52,722,821 | 9.9 kb | Proximal (<10kb) Multiome | 629 | |
| chr4:52,750,745–52,752,040 | 39.1 kb | Distal (>10kb) Multiome | 368 | |
| chr4:52,834,642–52,835,399 | 122.5 kb | Distal (>10kb) Multiome | 83 | |
| chr4:52,861,376–52,863,512 | 149.8 kb | Distal (>10kb) Multiome | 543 | |
| chr4:52,873,892–52,874,335 | 161.6 kb | Distal (>10kb) Multiome | 112 | |
| chr4:54,103,204–54,104,370 | 1391.2 kb | Distal (>10kb) Multiome HiCAR | 120 |
Genomic view of the DANCR 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.