This gene encodes a component of a voltage-activated potassium channel found in cardiac muscle, nerve cells, and microglia. Four copies of this protein interact with one copy of the KCNE2 protein to form a functional potassium channel. Mutations in this gene can cause long QT syndrome type 2 (LQT2). Transcript variants encoding distinct isoforms have been identified. [provided by RefSeq, May 2022]
Transcription factors with Perturb-seq knockdown data for KCNH2. 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 = KCNH2 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 KCNH2, 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 |
|---|---|---|---|---|
| chr7:150,401,607–150,402,937 | 576.1 kb | Distal (>10kb) Multiome HiCAR | 307 | |
| chr7:150,404,616–150,406,417 | 572.9 kb | Distal (>10kb) Multiome HiCAR | 952 | |
| chr7:150,876,795–150,877,753 | 101.2 kb | Distal (>10kb) Multiome | 396 | |
| chr7:150,973,967–150,975,352 | 3.0 kb | Proximal (<10kb) | 572 | |
| chr7:150,977,414–150,979,693 | 938 bp | At TSS Multiome | 629 | |
| chr7:150,983,996–150,984,172 | 5.7 kb | Proximal (<10kb) | 298 | |
| chr7:150,986,103–150,986,350 | 7.8 kb | Proximal (<10kb) | 230 | |
| chr7:150,988,543–150,989,168 | 10.5 kb | Distal (>10kb) Multiome | 348 | |
| chr7:151,007,679–151,009,192 | 30.6 kb | Distal (>10kb) Multiome | 693 | |
| chr7:151,012,895–151,014,461 | 35.5 kb | Distal (>10kb) Multiome | 414 | |
| chr7:151,017,863–151,019,302 | 40.1 kb | Distal (>10kb) Multiome | 677 | |
| chr7:151,026,724–151,029,117 | 50.1 kb | Distal (>10kb) Multiome | 1003 | |
| chr7:151,050,894–151,051,476 | 72.9 kb | Distal (>10kb) Multiome | 289 | |
| chr7:151,057,294–151,063,500 | 84.2 kb | Distal (>10kb) Multiome | 1138 | |
| chr7:151,080,217–151,081,897 | 102.6 kb | Distal (>10kb) Multiome | 909 | |
| chr7:151,083,053–151,083,998 | 105.2 kb | Distal (>10kb) Multiome | 581 | |
| chr7:151,085,505–151,086,758 | 107.9 kb | Distal (>10kb) Multiome | 774 | |
| chr7:151,114,416–151,115,951 | 137.2 kb | Distal (>10kb) Multiome | 279 | |
| chr7:151,123,775–151,124,402 | 145.7 kb | Distal (>10kb) Multiome | 399 | |
| chr7:151,125,352–151,126,446 | 147.6 kb | Distal (>10kb) Multiome | 283 | |
| chr7:151,166,900–151,168,657 | 190.0 kb | Distal (>10kb) Multiome | 533 | |
| chr7:151,226,743–151,227,948 | 249.0 kb | Distal (>10kb) Multiome | 820 | |
| chr7:151,232,039–151,233,087 | 254.2 kb | Distal (>10kb) Multiome | 692 | |
| chr7:151,244,849–151,245,940 | 267.2 kb | Distal (>10kb) Multiome | 325 | |
| chr7:151,247,809–151,249,951 | 270.6 kb | Distal (>10kb) Multiome | 522 | |
| chr7:151,251,506–151,252,414 | 273.7 kb | Distal (>10kb) Multiome | 448 | |
| chr7:151,276,919–151,277,487 | 298.9 kb | Distal (>10kb) Multiome | 367 |
Genomic view of the KCNH2 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.