Tight junctions represent one mode of cell-to-cell adhesion in epithelial or endothelial cell sheets, forming continuous seals around cells and serving as a physical barrier to prevent solutes and water from passing freely through the paracellular space. The protein encoded by this immunoglobulin superfamily gene member is localized in the tight junctions between high endothelial cells. Unlike other proteins in this family, the this protein is unable to adhere to leukocyte cell lines and only forms weak homotypic interactions. The encoded protein is a member of the junctional adhesion molecule protein family and acts as a receptor for another member of this family. A mutation in an intron of this gene is associated with hemorrhagic destruction of the brain, subependymal calcification, and congenital cataracts. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Apr 2011]
Transcription factors with Perturb-seq knockdown data for JAM3. 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 = JAM3 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 JAM3, 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 |
|---|---|---|---|---|
| chr11:133,787,506–133,788,183 | 281.2 kb | Distal (>10kb) Multiome | 187 | |
| chr11:133,854,269–133,855,200 | 214.4 kb | Distal (>10kb) Multiome | 98 | |
| chr11:133,947,207–133,947,600 | 121.7 kb | Distal (>10kb) Multiome | 204 | |
| chr11:133,951,064–133,952,093 | 117.5 kb | Distal (>10kb) Multiome | 268 | |
| chr11:133,955,545–133,957,834 | 112.0 kb | Distal (>10kb) Multiome | 423 | |
| chr11:134,033,701–134,034,640 | 34.9 kb | Distal (>10kb) Multiome | 251 | |
| chr11:134,036,538–134,037,918 | 31.8 kb | Distal (>10kb) Multiome | 381 | |
| chr11:134,060,382–134,060,679 | 8.4 kb | Proximal (<10kb) | 40 | |
| chr11:134,068,849–134,069,824 | 27 bp | At TSS Multiome | 407 | |
| chr11:134,223,679–134,225,624 | 155.5 kb | Distal (>10kb) Multiome | 944 | |
| chr11:134,252,809–134,254,050 | 184.4 kb | Distal (>10kb) Multiome | 758 | |
| chr11:134,272,860–134,273,509 | 204.0 kb | Distal (>10kb) Multiome | 183 | |
| chr11:134,275,655–134,277,823 | 207.4 kb | Distal (>10kb) Multiome | 418 | |
| chr11:134,331,384–134,332,745 | 262.8 kb | Distal (>10kb) Multiome | 483 | |
| chr11:134,360,067–134,360,637 | 291.4 kb | Distal (>10kb) Multiome | 397 |
Genomic view of the JAM3 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.