Enables rDNA binding activity. Involved in negative regulation of macromolecule biosynthetic process; positive regulation of ATP metabolic process; and protein homooligomerization. Located in heterochromatin; nucleolus; and nucleoplasm. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for BEND3. 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 = BEND3 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 BEND3, 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 |
|---|---|---|---|---|
| chr6:106,973,315–106,975,918 | 139.5 kb | Distal (>10kb) Multiome | 630 | |
| chr6:107,027,839–107,028,798 | 86.2 kb | Distal (>10kb) Multiome | 935 | |
| chr6:107,061,167–107,063,474 | 52.9 kb | Distal (>10kb) Multiome | 251 | |
| chr6:107,114,151–107,117,016 | 101 bp | At TSS Multiome | 998 | |
| chr6:107,138,690–107,139,329 | 24.6 kb | Distal (>10kb) Multiome | 83 | |
| chr6:107,458,801–107,460,297 | 345.2 kb | Distal (>10kb) Multiome HiCAR | 965 |
Genomic view of the BEND3 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.