The nuclear pore complex is a massive structure that extends across the nuclear envelope, forming a gateway that regulates the flow of macromolecules between the nucleus and the cytoplasm. Nucleoporins, a family of 50 to 100 proteins, are the main components of the nuclear pore complex in eukaryotic cells. The protein encoded by this gene belongs to the nucleoporin family and is associated with the oncogenic nucleoporin CAN/Nup214 in a dynamic subcomplex. This protein is also overexpressed in a large number of malignant neoplasms and precancerous dysplasias. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Mar 2016]
Transcription factors with Perturb-seq knockdown data for NUP88. 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 = NUP88 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 NUP88, 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 |
|---|---|---|---|---|
| chr17:5,191,578–5,192,305 | 227.7 kb | Distal (>10kb) Multiome | 771 | |
| chr17:5,281,614–5,283,116 | 137.4 kb | Distal (>10kb) Multiome | 705 | |
| chr17:5,419,157–5,420,471 | 183 bp | At TSS Multiome | 891 | |
| chr17:5,438,801–5,439,554 | 19.5 kb | Distal (>10kb) Multiome | 889 | |
| chr17:5,468,372–5,469,379 | 49.3 kb | Distal (>10kb) Multiome | 890 | |
| chr17:5,485,725–5,487,042 | 66.8 kb | Distal (>10kb) Multiome | 951 | |
| chr17:5,500,534–5,501,338 | 81.4 kb | Distal (>10kb) Multiome | 489 | |
| chr17:5,711,154–5,711,693 | 291.8 kb | Distal (>10kb) Multiome | 46 | |
| chr17:6,640,233–6,641,593 | 1221.3 kb | Distal (>10kb) Multiome HiCAR | 878 |
Genomic view of the NUP88 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.