This gene encodes the perlecan protein, which consists of a core protein to which three long chains of glycosaminoglycans (heparan sulfate or chondroitin sulfate) are attached. The perlecan protein is a large multidomain proteoglycan that binds to and cross-links many extracellular matrix components and cell-surface molecules. It has been shown that this protein interacts with laminin, prolargin, collagen type IV, FGFBP1, FBLN2, FGF7 and transthyretin, etc., and it plays essential roles in multiple biological activities. Perlecan is a key component of the vascular extracellular matrix, where it helps to maintain the endothelial barrier function. It is a potent inhibitor of smooth muscle cell proliferation and is thus thought to help maintain vascular homeostasis. It can also promote growth factor (e.g., FGF2) activity and thus stimulate endothelial growth and re-generation. It is a major component of basement membranes, where it is involved in the stabilization of other molecules as well as being involved with glomerular permeability to macromolecules and cell adhesion. Mutations in this gene cause Schwartz-Jampel syndrome type 1, Silverman-Handmaker type of dyssegmental dysplasia, and tardive dyskinesia. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, May 2014]
Transcription factors with Perturb-seq knockdown data for HSPG2. 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 = HSPG2 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 HSPG2, 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 |
|---|---|---|---|---|
| chr1:21,638,784–21,640,464 | 297.5 kb | Distal (>10kb) Multiome | 542 | |
| chr1:21,651,625–21,652,424 | 285.4 kb | Distal (>10kb) Multiome | 367 | |
| chr1:21,659,145–21,659,637 | 277.9 kb | Distal (>10kb) Multiome | 960 | |
| chr1:21,668,987–21,670,050 | 267.8 kb | Distal (>10kb) Multiome | 743 | |
| chr1:21,782,310–21,784,177 | 153.9 kb | Distal (>10kb) Multiome | 1096 | |
| chr1:21,814,299–21,814,932 | 122.7 kb | Distal (>10kb) Multiome | 227 | |
| chr1:21,922,465–21,923,180 | 14.5 kb | Distal (>10kb) Multiome | 263 | |
| chr1:21,933,771–21,934,095 | 3.2 kb | Proximal (<10kb) | 267 | |
| chr1:21,936,519–21,938,007 | 117 bp | At TSS Multiome | 630 | |
| chr1:21,944,503–21,944,715 | 7.2 kb | Proximal (<10kb) | 94 | |
| chr1:22,024,858–22,026,137 | 88.2 kb | Distal (>10kb) Multiome | 937 | |
| chr1:22,052,314–22,053,858 | 115.4 kb | Distal (>10kb) Multiome | 912 | |
| chr1:22,142,284–22,143,888 | 206.0 kb | Distal (>10kb) Multiome | 298 | |
| chr1:22,154,320–22,155,232 | 217.5 kb | Distal (>10kb) Multiome | 103 |
Genomic view of the HSPG2 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.