This gene encodes two proteins: sterol carrier protein X (SCPx) and sterol carrier protein 2 (SCP2), as a result of transcription initiation from 2 independently regulated promoters. The transcript initiated from the proximal promoter encodes the longer SCPx protein, and the transcript initiated from the distal promoter encodes the shorter SCP2 protein, with the 2 proteins sharing a common C-terminus. Evidence suggests that the SCPx protein is a peroxisome-associated thiolase that is involved in the oxidation of branched chain fatty acids, while the SCP2 protein is thought to be an intracellular lipid transfer protein. This gene is highly expressed in organs involved in lipid metabolism, and may play a role in Zellweger syndrome, in which cells are deficient in peroxisomes and have impaired bile acid synthesis. Alternative splicing of this gene produces multiple transcript variants, some encoding different isoforms.[provided by RefSeq, Aug 2010]
Transcription factors with Perturb-seq knockdown data for SCP2. 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 = SCP2 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 SCP2, 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 |
|---|---|---|---|---|
| chr1:52,726,263–52,726,954 | 288.4 kb | Distal (>10kb) Multiome | 681 | |
| chr1:52,842,499–52,843,778 | 172.1 kb | Distal (>10kb) Multiome | 687 | |
| chr1:52,921,024–52,921,900 | 93.3 kb | Distal (>10kb) Multiome | 693 | |
| chr1:52,926,942–52,927,992 | 87.6 kb | Distal (>10kb) Multiome | 610 | |
| chr1:53,014,810–53,015,051 | at TSS | At TSS | 594 | |
| chr1:53,062,171–53,063,328 | 48.2 kb | Distal (>10kb) Multiome | 134 | |
| chr1:53,115,329–53,116,462 | 101.1 kb | Distal (>10kb) Multiome | 396 | |
| chr1:53,196,600–53,197,254 | 181.9 kb | Distal (>10kb) Multiome | 711 | |
| chr1:53,220,162–53,220,983 | 205.6 kb | Distal (>10kb) Multiome | 1003 | |
| chr1:53,238,114–53,239,137 | 223.7 kb | Distal (>10kb) Multiome | 884 |
Genomic view of the SCP2 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.