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. Increased expression of this gene may play a role in cellular transformation and the progression of several malignancies including lung cancer, mesothelioma and breast cancer. Alternatively spliced transcript variants have been observed for this gene, and a pseudogene of this gene is located on the short arm of chromosome 9. [provided by RefSeq, Nov 2011]
Transcription factors with Perturb-seq knockdown data for LSM1. 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 = LSM1 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 LSM1, 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 |
|---|---|---|---|---|
| chr8:37,898,759–37,900,024 | 277.2 kb | Distal (>10kb) Multiome | 956 | |
| chr8:37,915,980–37,916,519 | 260.4 kb | Distal (>10kb) Multiome | 465 | |
| chr8:37,965,216–37,966,371 | 211.1 kb | Distal (>10kb) Multiome HiCAR | 177 | |
| chr8:38,015,136–38,015,926 | 161.2 kb | Distal (>10kb) Multiome | 59 | |
| chr8:38,029,913–38,031,249 | 146.3 kb | Distal (>10kb) Multiome | 948 | |
| chr8:38,066,984–38,067,582 | 109.5 kb | Distal (>10kb) Multiome | 414 | |
| chr8:38,070,928–38,072,232 | 105.0 kb | Distal (>10kb) Multiome | 282 | |
| chr8:38,104,797–38,106,255 | 71.0 kb | Distal (>10kb) Multiome | 954 | |
| chr8:38,108,727–38,109,662 | 67.6 kb | Distal (>10kb) Multiome | 83 | |
| chr8:38,175,948–38,177,501 | 1 bp | At TSS Multiome | 870 | |
| chr8:38,184,514–38,184,659 | 7.8 kb | Proximal (<10kb) | 212 | |
| chr8:38,230,935–38,232,445 | 54.9 kb | Distal (>10kb) Multiome | 904 | |
| chr8:38,268,159–38,269,673 | 92.5 kb | Distal (>10kb) Multiome | 795 | |
| chr8:38,381,367–38,383,496 | 205.6 kb | Distal (>10kb) Multiome | 956 | |
| chr8:38,385,791–38,387,334 | 209.7 kb | Distal (>10kb) Multiome | 816 | |
| chr8:38,440,285–38,442,102 | 264.1 kb | Distal (>10kb) Multiome | 293 | |
| chr8:38,442,374–38,442,980 | 265.9 kb | Distal (>10kb) Multiome | 254 | |
| chr8:38,467,549–38,469,321 | 292.0 kb | Distal (>10kb) Multiome | 775 | |
| chr8:38,471,859–38,472,443 | 295.5 kb | Distal (>10kb) Multiome | 84 | |
| chr8:38,734,447–38,735,152 | 558.1 kb | Distal (>10kb) Multiome HiCAR | 738 |
Genomic view of the LSM1 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.