This gene is a member of the aggrecan/versican proteoglycan family. The encoded protein is an integral part of the extracellular matrix in cartilagenous tissue and it withstands compression in cartilage. Mutations in this gene may be involved in skeletal dysplasia and spinal degeneration. Multiple alternatively spliced transcript variants that encode different protein isoforms have been observed in this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for ACAN. 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 = ACAN 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 ACAN, 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 |
|---|---|---|---|---|
| chr15:88,545,733–88,547,888 | 257.2 kb | Distal (>10kb) Multiome | 818 | |
| chr15:88,604,930–88,605,917 | 198.1 kb | Distal (>10kb) Multiome | 530 | |
| chr15:88,610,494–88,611,216 | 192.9 kb | Distal (>10kb) Multiome | 201 | |
| chr15:88,612,843–88,613,762 | 190.4 kb | Distal (>10kb) Multiome | 214 | |
| chr15:88,614,278–88,615,021 | 189.0 kb | Distal (>10kb) Multiome | 414 | |
| chr15:88,620,659–88,621,775 | 182.5 kb | Distal (>10kb) Multiome | 829 | |
| chr15:88,638,306–88,639,588 | 164.8 kb | Distal (>10kb) Multiome | 1000 | |
| chr15:88,802,773–88,804,052 | 256 bp | At TSS Multiome | 209 | |
| chr15:88,884,728–88,885,208 | 81.1 kb | Distal (>10kb) Multiome | 118 | |
| chr15:88,894,331–88,895,700 | 90.8 kb | Distal (>10kb) Multiome | 400 | |
| chr15:88,912,215–88,913,629 | 109.6 kb | Distal (>10kb) Multiome | 632 | |
| chr15:88,985,799–88,986,383 | 182.4 kb | Distal (>10kb) Multiome | 269 | |
| chr15:88,998,974–88,999,579 | 195.5 kb | Distal (>10kb) Multiome | 139 | |
| chr15:89,017,417–89,018,078 | 214.0 kb | Distal (>10kb) Multiome | 478 | |
| chr15:89,087,643–89,089,226 | 284.5 kb | Distal (>10kb) Multiome | 898 |
Genomic view of the ACAN 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.