This gene encodes a member of the LIM-domain family of zinc finger proteins. The encoded protein contains an N-terminal cysteine-rich domain and two C-terminal LIM domains. The presence of LIM domains suggests involvement in protein-protein interactions. The protein may act as a co-regulator of transcription along with other transcription factors. Alternate splicing results in multiple transcript variants of this gene. [provided by RefSeq, May 2013]
Transcription factors with Perturb-seq knockdown data for LMCD1. 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 = LMCD1 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 LMCD1, 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 |
|---|---|---|---|---|
| chr3:8,320,405–8,321,588 | 180.8 kb | Distal (>10kb) Multiome | 170 | |
| chr3:8,480,497–8,481,808 | 20.5 kb | Distal (>10kb) Multiome | 166 | |
| chr3:8,499,209–8,499,804 | 2.0 kb | Proximal (<10kb) | 185 | |
| chr3:8,500,449–8,501,076 | 729 bp | At TSS | 178 | |
| chr3:8,501,272–8,502,142 | 95 bp | At TSS Multiome | 885 | |
| chr3:8,503,558–8,504,268 | 2.3 kb | Proximal (<10kb) Multiome | 264 | |
| chr3:8,622,544–8,623,923 | 121.3 kb | Distal (>10kb) Multiome | 391 | |
| chr3:8,659,994–8,661,068 | 158.7 kb | Distal (>10kb) Multiome | 116 | |
| chr3:8,663,020–8,663,944 | 161.7 kb | Distal (>10kb) Multiome | 393 | |
| chr3:8,714,000–8,714,720 | 212.5 kb | Distal (>10kb) Multiome | 121 | |
| chr3:8,741,383–8,742,278 | 240.0 kb | Distal (>10kb) Multiome | 328 | |
| chr3:8,767,641–8,768,551 | 266.2 kb | Distal (>10kb) Multiome | 241 | |
| chr3:8,768,956–8,769,996 | 267.7 kb | Distal (>10kb) Multiome | 494 |
Genomic view of the LMCD1 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.