This gene encodes a member of the DNA mismatch repair mutS family. This member is a meiosis-specific protein that is not involved in DNA mismatch correction, but is required for reciprocal recombination and proper segregation of homologous chromosomes at meiosis I. This protein and MSH5 form a heterodimer which binds uniquely to a Holliday Junction and its developmental progenitor, thus provoking ADP-ATP exchange, and stabilizing the interaction between parental chromosomes during meiosis double-stranded break repair. [provided by RefSeq, Aug 2011]
Transcription factors with Perturb-seq knockdown data for MSH4. 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 = MSH4 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 MSH4, 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 |
|---|---|---|---|---|
| chr1:75,587,198–75,588,494 | 209.0 kb | Distal (>10kb) Multiome | 154 | |
| chr1:75,614,480–75,617,289 | 182.0 kb | Distal (>10kb) Multiome | 747 | |
| chr1:75,723,970–75,725,189 | 72.3 kb | Distal (>10kb) Multiome | 977 | |
| chr1:75,785,522–75,786,824 | 10.7 kb | Distal (>10kb) Multiome | 835 | |
| chr1:75,795,746–75,799,043 | at TSS | At TSS | 629 | |
| chr1:75,800,086–75,801,044 | 3.2 kb | Proximal (<10kb) | 11 | |
| chr1:75,801,165–75,802,432 | 4.3 kb | Proximal (<10kb) | 35 | |
| chr1:75,802,783–75,802,992 | 5.9 kb | Proximal (<10kb) | 5 | |
| chr1:76,074,255–76,075,430 | 277.8 kb | Distal (>10kb) Multiome | 452 |
Genomic view of the MSH4 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.