This gene encodes a TBP- (TATA box-binding protein) associated phosphoprotein that represses both basal and activated levels of transcription. The encoded protein is phosphorylated in vivo and this phosphorylation affects its interaction with TBP. This protein contains a histone fold motif at the amino terminus, a TBP-binding domain, and a glutamine- and alanine-rich region. The binding of DR1 repressor complexes to TBP-promoter complexes may establish a mechanism in which an altered DNA conformation, together with the formation of higher order complexes, inhibits the assembly of the preinitiation complex and controls the rate of RNA polymerase II transcription. [provided by RefSeq, Jul 2008]
Modules significantly affected by knockdown. ↑ Up = module upregulated upon KD; ↓ Down = module downregulated upon KD.
| Cluster | Dir | NES | padj | Bind | OR | padj (bind) |
|---|
| Module | Dir | NES | #gRNA | padj | Bind | OR | padj (bind) |
|---|
| Submodule | Module | Dir | NES | #gRNA | Bind | OR | padj (bind) |
|---|
Genes likely regulated by DR1 through linked binding evidence in open chromatin. The chart ranks TF-linked genes by their mean Perturb-seq response to DR1 knockdown, with negative coefficients indicating downregulation and positive coefficients indicating upregulation upon knockdown.
Open chromatin elements (ATAC-seq) where DR1 has ChIP-seq or motif footprint binding evidence and which are linked to at least one target gene region.
| Element | Size | Linked genes |
|---|
Transcription factors with Perturb-seq knockdown data for DR1. 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 = DR1 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 DR1, 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 |
|---|---|---|---|---|
| chr1:93,078,561–93,080,172 | 266.7 kb | Distal (>10kb) Multiome | 1219 | |
| chr1:93,179,586–93,181,175 | 165.4 kb | Distal (>10kb) Multiome | 1019 | |
| chr1:93,345,396–93,346,457 | 85 bp | At TSS Multiome | 1003 | |
| chr1:93,447,560–93,449,029 | 102.2 kb | Distal (>10kb) Multiome | 726 | |
| chr1:93,474,058–93,474,810 | 128.4 kb | Distal (>10kb) Multiome | 63 | |
| chr1:93,484,155–93,485,250 | 138.9 kb | Distal (>10kb) Multiome | 146 | |
| chr1:93,622,085–93,622,775 | 276.4 kb | Distal (>10kb) Multiome | 282 | |
| chr1:93,820,560–93,821,453 | 475.2 kb | Distal (>10kb) Multiome HiCAR | 160 | |
| chr1:93,845,985–93,846,892 | 500.3 kb | Distal (>10kb) Multiome HiCAR | 732 | |
| chr1:93,846,995–93,848,315 | 501.6 kb | Distal (>10kb) Multiome HiCAR | 954 | |
| chr1:93,878,726–93,879,400 | 533.3 kb | Distal (>10kb) Multiome HiCAR | 851 |
Genomic view of the DR1 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.