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 protein contains a C-terminal PTP domain and an N-terminal domain homologous to the band 4.1 superfamily of cytoskeletal-associated proteins. This PTP has been shown to interact with glutamate receptor delta 2 and epsilon subunits, and is thought to play a role in signalling downstream of the glutamate receptors through tyrosine dephosphorylation. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for PTPN4. 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 = PTPN4 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 PTPN4, 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 |
|---|---|---|---|---|
| chr2:119,476,117–119,476,795 | 283.4 kb | Distal (>10kb) Multiome | 482 | |
| chr2:119,523,786–119,524,663 | 235.6 kb | Distal (>10kb) Multiome | 187 | |
| chr2:119,537,405–119,538,283 | 222.1 kb | Distal (>10kb) Multiome | 122 | |
| chr2:119,544,074–119,545,082 | 215.5 kb | Distal (>10kb) Multiome | 610 | |
| chr2:119,678,779–119,679,506 | 80.8 kb | Distal (>10kb) Multiome | 786 | |
| chr2:119,700,871–119,701,304 | 58.8 kb | Distal (>10kb) Multiome | 92 | |
| chr2:119,702,889–119,703,364 | 56.9 kb | Distal (>10kb) Multiome | 436 | |
| chr2:119,753,462–119,753,619 | 6.3 kb | Proximal (<10kb) | 105 | |
| chr2:119,759,053–119,760,696 | 167 bp | At TSS Multiome | 1033 | |
| chr2:119,792,781–119,793,257 | 33.1 kb | Distal (>10kb) Multiome | 152 | |
| chr2:119,996,816–119,997,661 | 237.3 kb | Distal (>10kb) Multiome | 20 | |
| chr2:120,012,388–120,013,831 | 253.1 kb | Distal (>10kb) Multiome | 973 | |
| chr2:120,222,919–120,223,954 | 463.5 kb | Distal (>10kb) Multiome HiCAR | 806 |
Genomic view of the PTPN4 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.