This locus represents naturally occurring read-through transcription between the neighboring mutS homolog 5 (MSH5) and chromosome 6 open reading frame 26 (C6orf26) genes. The read-through transcript is a candidate for nonsense-mediated mRNA decay (NMD), and is thus unlikely to produce a protein product. [provided by RefSeq, Feb 2011]
Transcription factors with Perturb-seq knockdown data for MSH5-SAPCD1. 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 = MSH5-SAPCD1 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 MSH5-SAPCD1, 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 |
|---|---|---|---|---|
| chr6:31,728,852–31,730,814 | 9.2 kb | Proximal (<10kb) | 979 | |
| chr6:31,734,710–31,735,156 | 4.9 kb | Proximal (<10kb) | 570 | |
| chr6:31,736,263–31,736,697 | 3.3 kb | Proximal (<10kb) | 727 | |
| chr6:31,738,486–31,738,918 | 1.1 kb | Proximal (<10kb) | 609 | |
| chr6:31,739,236–31,740,741 | at TSS | At TSS | 1043 |
Genomic view of the MSH5-SAPCD1 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.