This gene encodes a protein containing two conserved tandem RNA recognition motifs. Similar proteins in other species function as RNA-binding proteins and play central roles in posttranscriptional gene regulation. Expression of this gene has been correlated with the grade of the malignancy and proliferative activity in gliomas and melanomas. A pseudogene for this gene is located on chromosome 11q13. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for MSI1. 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 = MSI1 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 MSI1, 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 |
|---|---|---|---|---|
| chr12:120,086,807–120,087,619 | 282.0 kb | Distal (>10kb) Multiome | 957 | |
| chr12:120,093,667–120,094,287 | 275.1 kb | Distal (>10kb) Multiome | 172 | |
| chr12:120,116,125–120,117,765 | 252.2 kb | Distal (>10kb) Multiome | 903 | |
| chr12:120,194,328–120,196,208 | 174.4 kb | Distal (>10kb) Multiome | 1032 | |
| chr12:120,200,671–120,201,921 | 167.9 kb | Distal (>10kb) Multiome | 1006 | |
| chr12:120,228,170–120,231,900 | 140.6 kb | Distal (>10kb) Multiome | 1050 | |
| chr12:120,265,150–120,266,362 | 103.4 kb | Distal (>10kb) Multiome | 617 | |
| chr12:120,290,301–120,293,526 | 76.0 kb | Distal (>10kb) Multiome | 1338 | |
| chr12:120,302,138–120,302,609 | 66.8 kb | Distal (>10kb) Multiome | 711 | |
| chr12:120,317,215–120,317,997 | 51.5 kb | Distal (>10kb) Multiome | 872 | |
| chr12:120,361,277–120,362,299 | 7.4 kb | Proximal (<10kb) Multiome | 308 | |
| chr12:120,368,637–120,370,303 | 41 bp | At TSS Multiome | 250 | |
| chr12:120,388,762–120,389,560 | 20.0 kb | Distal (>10kb) Multiome HiCAR | 178 | |
| chr12:120,394,470–120,395,052 | 25.6 kb | Distal (>10kb) Multiome HiCAR | 283 | |
| chr12:120,413,842–120,414,516 | 45.0 kb | Distal (>10kb) Multiome HiCAR | 289 | |
| chr12:120,437,436–120,438,568 | 68.8 kb | Distal (>10kb) Multiome HiCAR | 725 | |
| chr12:120,445,927–120,446,970 | 77.3 kb | Distal (>10kb) Multiome HiCAR | 982 | |
| chr12:120,468,864–120,470,390 | 100.6 kb | Distal (>10kb) Multiome HiCAR | 942 | |
| chr12:120,495,362–120,496,939 | 126.8 kb | Distal (>10kb) Multiome | 794 | |
| chr12:120,528,856–120,529,468 | 160.0 kb | Distal (>10kb) Multiome | 849 | |
| chr12:120,534,230–120,535,077 | 165.3 kb | Distal (>10kb) Multiome | 730 | |
| chr12:120,580,919–120,581,830 | 212.3 kb | Distal (>10kb) Multiome | 736 | |
| chr12:120,584,329–120,585,045 | 215.6 kb | Distal (>10kb) Multiome | 460 | |
| chr12:120,640,005–120,641,704 | 271.3 kb | Distal (>10kb) Multiome | 562 | |
| chr12:120,648,914–120,649,665 | 280.1 kb | Distal (>10kb) Multiome | 405 | |
| chr12:120,668,575–120,669,135 | 299.7 kb | Distal (>10kb) Multiome | 98 |
Genomic view of the MSI1 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.