This gene encodes a protein with 3 Asn-Pro-Phe (NPF) motifs, an SH3 domain, a PXXP motif, a bipartite nuclear targeting signal, and a tyrosine phosphorylation site. This protein is involved in cargo-specific control of clathrin-mediated endocytosis, specifically controlling the internalization of a specific protein receptor. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SH3BP4. 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 = SH3BP4 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 SH3BP4, 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 |
|---|---|---|---|---|
| chr2:234,686,273–234,686,759 | 265.5 kb | Distal (>10kb) Multiome | 184 | |
| chr2:234,932,545–234,933,161 | 19.2 kb | Distal (>10kb) Multiome | 106 | |
| chr2:234,950,743–234,951,142 | 932 bp | At TSS | 88 | |
| chr2:234,951,221–234,953,071 | 143 bp | At TSS Multiome | 501 | |
| chr2:234,955,667–234,956,807 | 4.2 kb | Proximal (<10kb) Multiome | 127 | |
| chr2:235,000,640–235,001,516 | 49.2 kb | Distal (>10kb) Multiome | 461 | |
| chr2:235,005,469–235,006,265 | 53.9 kb | Distal (>10kb) Multiome | 646 | |
| chr2:235,145,653–235,146,792 | 194.2 kb | Distal (>10kb) Multiome | 76 |
Genomic view of the SH3BP4 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.