This gene encodes a member of the LNX (Ligand of Numb Protein-X) family of RING-type ubiquitin E3 ligases. This protein may function in vascular morphogenesis and the differentiation of adipocytes, osteoblasts and myoblasts. This protein may be targeted for degradation by the human papilloma virus E6 protein. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]
Transcription factors with Perturb-seq knockdown data for PDZRN3. 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 = PDZRN3 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 PDZRN3, 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 |
|---|---|---|---|---|
| chr3:73,361,378–73,362,083 | 263.2 kb | Distal (>10kb) Multiome | 84 | |
| chr3:73,441,786–73,443,334 | 182.4 kb | Distal (>10kb) Multiome | 158 | |
| chr3:73,622,134–73,622,463 | 2.5 kb | Proximal (<10kb) | 170 | |
| chr3:73,623,695–73,625,697 | 19 bp | At TSS Multiome | 545 | |
| chr3:73,850,900–73,851,683 | 226.4 kb | Distal (>10kb) Multiome HiCAR | 101 |
Genomic view of the PDZRN3 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.