The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This PTP possesses an extracellular region, a single transmembrane region, and two tandem intracellular catalytic domains, and thus represents a receptor-type PTP. The extracellular region contains a meprin-A5 antigen-PTP (MAM) domain, Ig-like and fibronectin type III-like repeats. This PTP was thought to play roles in cell-cell recognition and adhesion. Studies of the similar gene in mice suggested the role of this PTP in early neural development. The expression of this gene was reported to be regulated by phorbol myristate acetate (PMA) or calcium ionophore in Jurkat T lymphoma cells. Alternatively spliced transcript variants have been reported. [provided by RefSeq, Aug 2010]
Transcription factors with Perturb-seq knockdown data for PTPRU. 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 = PTPRU 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 PTPRU, 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 |
|---|---|---|---|---|
| chr1:29,120,877–29,125,914 | 137.8 kb | Distal (>10kb) Multiome | 782 | |
| chr1:29,181,113–29,182,382 | 78.2 kb | Distal (>10kb) Multiome | 1028 | |
| chr1:29,230,591–29,231,321 | 29.2 kb | Distal (>10kb) Multiome | 779 | |
| chr1:29,236,103–29,236,982 | 23.7 kb | Distal (>10kb) Multiome | 621 | |
| chr1:29,249,179–29,249,843 | 10.8 kb | Distal (>10kb) Multiome | 238 | |
| chr1:29,259,283–29,260,756 | 126 bp | At TSS Multiome | 310 | |
| chr1:29,282,701–29,284,079 | 23.1 kb | Distal (>10kb) Multiome | 308 | |
| chr1:29,324,465–29,325,612 | 64.8 kb | Distal (>10kb) Multiome | 180 | |
| chr1:30,242,642–30,243,684 | 982.9 kb | Distal (>10kb) Multiome HiCAR | 156 | |
| chr1:30,685,020–30,686,083 | 1425.3 kb | Distal (>10kb) Multiome HiCAR | 317 | |
| chr1:30,690,022–30,690,694 | 1430.1 kb | Distal (>10kb) Multiome HiCAR | 35 | |
| chr1:30,717,727–30,719,875 | 1458.2 kb | Distal (>10kb) Multiome HiCAR | 1003 |
Genomic view of the PTPRU 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.