This gene encodes a member of the DNA mismatch repair MutS family. In E. coli, the MutS protein helps in the recognition of mismatched nucleotides prior to their repair. A highly conserved region of approximately 150 aa, called the Walker-A adenine nucleotide binding motif, exists in MutS homologs. The encoded protein heterodimerizes with MSH2 to form a mismatch recognition complex that functions as a bidirectional molecular switch that exchanges ADP and ATP as DNA mismatches are bound and dissociated. Mutations in this gene may be associated with hereditary nonpolyposis colon cancer, colorectal cancer, and endometrial cancer. Transcripts variants encoding different isoforms have been described. [provided by RefSeq, Jul 2013]
Transcription factors with Perturb-seq knockdown data for MSH6. 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 = MSH6 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 MSH6, 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 |
|---|---|---|---|---|
| chr2:47,401,975–47,403,688 | 380.1 kb | Distal (>10kb) Multiome HiCAR | 1037 | |
| chr2:47,569,846–47,572,135 | 211.9 kb | Distal (>10kb) Multiome | 861 | |
| chr2:47,687,986–47,688,838 | 94.8 kb | Distal (>10kb) Multiome | 108 | |
| chr2:47,695,400–47,699,248 | 84.4 kb | Distal (>10kb) Multiome | 441 | |
| chr2:47,727,846–47,728,468 | 55.0 kb | Distal (>10kb) Multiome | 46 | |
| chr2:47,755,307–47,756,515 | 27.2 kb | Distal (>10kb) Multiome | 263 | |
| chr2:47,757,206–47,758,182 | 25.5 kb | Distal (>10kb) Multiome | 88 | |
| chr2:47,759,506–47,760,474 | 23.1 kb | Distal (>10kb) Multiome | 166 | |
| chr2:47,767,901–47,768,582 | 15.0 kb | Distal (>10kb) Multiome | 421 | |
| chr2:47,782,231–47,784,581 | 925 bp | At TSS Multiome | 1079 | |
| chr2:47,904,657–47,907,193 | 123.5 kb | Distal (>10kb) Multiome | 972 | |
| chr2:48,047,158–48,047,658 | 264.3 kb | Distal (>10kb) Multiome | 156 |
Genomic view of the MSH6 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.