The protein encoded by this gene is an endothelial cell adhesion molecule that interacts preferentially with the leukocyte beta7 integrin LPAM-1 (alpha4beta7), L-selectin, and VLA-4 (alpha4beta1) on myeloid cells to direct leukocytes into mucosal and inflamed tissues. It is a member of the immunoglobulin family and is similar to ICAM1 and VCAM1. At least seven alternatively spliced transcripts encoding different protein isoforms have been found for this gene, but the full-length nature of some variants has not been determined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for MADCAM1. 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 = MADCAM1 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 MADCAM1, 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 |
|---|---|---|---|---|
| chr19:294,836–295,426 | 193.9 kb | Distal (>10kb) Multiome | 231 | |
| chr19:343,939–345,411 | 144.4 kb | Distal (>10kb) Multiome HiCAR | 600 | |
| chr19:408,569–409,459 | 80.1 kb | Distal (>10kb) Multiome | 310 | |
| chr19:459,789–461,382 | 29.0 kb | Distal (>10kb) Multiome | 545 | |
| chr19:461,557–462,453 | 27.1 kb | Distal (>10kb) Multiome | 580 | |
| chr19:488,399–489,918 | 54 bp | At TSS Multiome | 898 | |
| chr19:491,372–491,668 | 2.2 kb | Proximal (<10kb) | 275 | |
| chr19:495,535–495,919 | 6.4 kb | Proximal (<10kb) | 333 | |
| chr19:506,451–508,366 | 18.0 kb | Distal (>10kb) Multiome | 1001 | |
| chr19:510,509–511,797 | 21.7 kb | Distal (>10kb) Multiome | 739 | |
| chr19:518,865–519,356 | 29.9 kb | Distal (>10kb) Multiome | 151 | |
| chr19:530,809–533,397 | 42.2 kb | Distal (>10kb) Multiome | 856 | |
| chr19:572,071–573,594 | 83.3 kb | Distal (>10kb) Multiome | 888 | |
| chr19:588,127–589,976 | 99.1 kb | Distal (>10kb) Multiome | 526 | |
| chr19:632,653–633,806 | 144.4 kb | Distal (>10kb) Multiome | 758 | |
| chr19:639,456–640,331 | 150.6 kb | Distal (>10kb) Multiome | 389 | |
| chr19:662,267–663,864 | 174.2 kb | Distal (>10kb) Multiome | 723 | |
| chr19:679,616–681,731 | 191.5 kb | Distal (>10kb) Multiome | 832 | |
| chr19:703,387–704,718 | 214.9 kb | Distal (>10kb) Multiome | 586 | |
| chr19:708,425–709,293 | 219.6 kb | Distal (>10kb) Multiome | 317 |
Genomic view of the MADCAM1 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.