This gene encodes a member of the LSm family of RNA-binding proteins. LSm proteins form stable heteromers that bind specifically to the 3'-terminal oligo(U) tract of U6 snRNA and may play a role in pre-mRNA splicing by mediating U4/U6 snRNP formation. Pseudogenes of this gene are located on the short arm of chromosomes 6 and 19. [provided by RefSeq, Nov 2011]
Transcription factors with Perturb-seq knockdown data for LSM2. 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 = LSM2 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 LSM2, 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 |
|---|---|---|---|---|
| chr6:31,541,205–31,542,816 | 264.9 kb | Distal (>10kb) Multiome | 1073 | |
| chr6:31,546,485–31,547,136 | 260.2 kb | Distal (>10kb) Multiome | 589 | |
| chr6:31,547,301–31,547,742 | 259.3 kb | Distal (>10kb) Multiome | 762 | |
| chr6:31,580,713–31,581,330 | 225.9 kb | Distal (>10kb) Multiome | 745 | |
| chr6:31,619,744–31,621,435 | 186.4 kb | Distal (>10kb) Multiome | 1127 | |
| chr6:31,651,682–31,653,297 | 154.3 kb | Distal (>10kb) Multiome | 1113 | |
| chr6:31,660,325–31,660,941 | 146.2 kb | Distal (>10kb) Multiome HiCAR | 892 | |
| chr6:31,664,725–31,666,373 | 142.1 kb | Distal (>10kb) Multiome HiCAR | 1039 | |
| chr6:31,682,887–31,683,880 | 123.6 kb | Distal (>10kb) Multiome | 248 | |
| chr6:31,702,816–31,703,520 | 103.7 kb | Distal (>10kb) Multiome | 875 | |
| chr6:31,713,576–31,714,641 | 92.8 kb | Distal (>10kb) Multiome | 171 | |
| chr6:31,728,852–31,730,814 | 76.7 kb | Distal (>10kb) Multiome | 979 | |
| chr6:31,739,236–31,740,741 | 67.1 kb | Distal (>10kb) Multiome | 1043 | |
| chr6:31,766,045–31,766,778 | 40.5 kb | Distal (>10kb) Multiome | 351 | |
| chr6:31,795,097–31,796,366 | 11.0 kb | Distal (>10kb) Multiome | 979 | |
| chr6:31,806,162–31,807,183 | 3 bp | At TSS Multiome | 947 | |
| chr6:31,814,125–31,815,936 | 7.6 kb | Proximal (<10kb) Multiome | 822 | |
| chr6:31,818,020–31,818,663 | 11.4 kb | Distal (>10kb) Multiome | 280 | |
| chr6:31,821,306–31,822,544 | 15.1 kb | Distal (>10kb) Multiome | 714 | |
| chr6:31,826,770–31,828,135 | 20.6 kb | Distal (>10kb) Multiome | 1000 | |
| chr6:31,834,277–31,835,371 | 27.8 kb | Distal (>10kb) Multiome | 1085 | |
| chr6:31,862,148–31,864,173 | 56.0 kb | Distal (>10kb) Multiome | 1118 | |
| chr6:31,896,965–31,898,037 | 90.6 kb | Distal (>10kb) Multiome | 654 | |
| chr6:31,901,114–31,902,643 | 95.3 kb | Distal (>10kb) Multiome | 826 | |
| chr6:31,958,527–31,959,598 | 152.1 kb | Distal (>10kb) Multiome | 953 | |
| chr6:31,971,421–31,972,872 | 165.3 kb | Distal (>10kb) Multiome | 1059 | |
| chr6:32,048,217–32,048,679 | 241.4 kb | Distal (>10kb) Multiome | 611 | |
| chr6:32,087,265–32,088,160 | 280.8 kb | Distal (>10kb) Multiome | 473 |
Genomic view of the LSM2 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.