The branched-chain alpha-ketoacid dehydrogenase complex (BCKD) is an important regulator of the valine, leucine, and isoleucine catabolic pathways. The protein encoded by this gene is found in the mitochondrion, where it phosphorylates and inactivates BCKD. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2012]
Transcription factors with Perturb-seq knockdown data for BCKDK. 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 = BCKDK 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 BCKDK, 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 |
|---|---|---|---|---|
| chr16:30,814,045–30,814,733 | 293.9 kb | Distal (>10kb) Multiome | 995 | |
| chr16:30,841,062–30,841,882 | 266.8 kb | Distal (>10kb) Multiome | 49 | |
| chr16:30,874,866–30,875,643 | 233.0 kb | Distal (>10kb) Multiome | 1108 | |
| chr16:30,893,485–30,894,587 | 214.2 kb | Distal (>10kb) Multiome | 950 | |
| chr16:30,895,854–30,897,426 | 211.3 kb | Distal (>10kb) Multiome | 822 | |
| chr16:30,901,969–30,902,794 | 206.0 kb | Distal (>10kb) Multiome | 579 | |
| chr16:30,921,611–30,925,097 | 185.0 kb | Distal (>10kb) Multiome | 1132 | |
| chr16:30,927,705–30,928,596 | 180.2 kb | Distal (>10kb) Multiome | 274 | |
| chr16:30,941,803–30,942,254 | 166.3 kb | Distal (>10kb) Multiome | 507 | |
| chr16:30,947,471–30,950,635 | 158.2 kb | Distal (>10kb) Multiome | 1066 | |
| chr16:30,953,370–30,954,135 | 154.6 kb | Distal (>10kb) Multiome | 499 | |
| chr16:30,956,960–30,958,498 | 150.7 kb | Distal (>10kb) Multiome | 1022 | |
| chr16:30,984,837–30,985,709 | 123.2 kb | Distal (>10kb) Multiome | 787 | |
| chr16:30,996,877–30,998,001 | 111.0 kb | Distal (>10kb) Multiome | 759 | |
| chr16:31,010,379–31,011,032 | 97.7 kb | Distal (>10kb) Multiome | 117 | |
| chr16:31,032,789–31,034,448 | 74.9 kb | Distal (>10kb) Multiome | 1047 | |
| chr16:31,041,996–31,042,665 | 66.0 kb | Distal (>10kb) Multiome | 213 | |
| chr16:31,072,597–31,074,957 | 34.9 kb | Distal (>10kb) Multiome | 1167 | |
| chr16:31,094,132–31,095,139 | 13.6 kb | Distal (>10kb) Multiome | 933 | |
| chr16:31,105,707–31,106,139 | 2.2 kb | Proximal (<10kb) | 903 | |
| chr16:31,108,209–31,108,826 | 19 bp | At TSS Multiome | 733 | |
| chr16:31,117,128–31,118,265 | 9.4 kb | Proximal (<10kb) Multiome | 929 | |
| chr16:31,134,682–31,136,040 | 27.3 kb | Distal (>10kb) Multiome | 450 | |
| chr16:31,138,695–31,139,457 | 30.7 kb | Distal (>10kb) Multiome | 413 | |
| chr16:31,141,455–31,143,270 | 34.0 kb | Distal (>10kb) Multiome | 856 | |
| chr16:31,148,229–31,148,775 | 40.1 kb | Distal (>10kb) Multiome | 209 | |
| chr16:31,179,340–31,181,495 | 71.7 kb | Distal (>10kb) Multiome | 1179 | |
| chr16:31,201,568–31,203,049 | 93.8 kb | Distal (>10kb) Multiome | 507 | |
| chr16:31,214,606–31,216,091 | 106.9 kb | Distal (>10kb) Multiome | 469 | |
| chr16:31,406,131–31,406,947 | 298.1 kb | Distal (>10kb) Multiome | 214 |
Genomic view of the BCKDK 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.