This gene encodes a glycosylated transmembrane protein that is cleaved to form a mature, secreted protein. The N-terminus of the precursor protein shares characteristics with other surfactant proteins and is sometimes called chondrosurfactant protein although no biological activity has yet been defined for it. The C-terminus of the precursor protein contains a 25 kDa mature protein called leukocyte cell-derived chemotaxin-1 or chondromodulin-1. The mature protein promotes chondrocyte growth and inhibits angiogenesis. This gene is expressed in the avascular zone of prehypertrophic cartilage and its expression decreases during chondrocyte hypertrophy and vascular invasion. The mature protein likely plays a role in endochondral bone development by permitting cartilaginous anlagen to be vascularized and replaced by bone. It may be involved also in the broad control of tissue vascularization during development. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for CNMD. 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 = CNMD 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 CNMD, 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 |
|---|---|---|---|---|
| chr13:52,449,904–52,451,090 | 289.2 kb | Distal (>10kb) Multiome | 972 | |
| chr13:52,454,948–52,456,258 | 284.3 kb | Distal (>10kb) Multiome | 791 | |
| chr13:52,599,686–52,600,643 | 139.5 kb | Distal (>10kb) Multiome | 545 | |
| chr13:52,617,038–52,617,928 | 122.4 kb | Distal (>10kb) Multiome | 723 | |
| chr13:52,651,967–52,653,338 | 87.2 kb | Distal (>10kb) Multiome | 966 | |
| chr13:52,738,655–52,740,130 | 829 bp | At TSS Multiome | 284 | |
| chr13:52,845,321–52,849,096 | 108.8 kb | Distal (>10kb) Multiome | 495 | |
| chr13:52,850,131–52,851,975 | 110.9 kb | Distal (>10kb) Multiome | 871 | |
| chr13:52,906,206–52,906,789 | 166.7 kb | Distal (>10kb) Multiome | 87 | |
| chr13:52,955,419–52,955,963 | 215.9 kb | Distal (>10kb) Multiome | 181 | |
| chr13:52,968,034–52,968,571 | 228.4 kb | Distal (>10kb) Multiome | 356 |
Genomic view of the CNMD 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.