NUP98
nucleoporin 98 and 96 precursor | NUP196, NUP96, Nup98-96, Nup98-Nup96

Nuclear pore complexes (NPCs) regulate the transport of macromolecules between the nucleus and cytoplasm, and are composed of many polypeptide subunits, many of which belong to the nucleoporin family. This gene belongs to the nucleoporin gene family and encodes a 186 kDa precursor protein that undergoes autoproteolytic cleavage to generate a 98 kDa nucleoporin and 96 kDa nucleoporin. The 98 kDa nucleoporin contains a Gly-Leu-Phe-Gly (GLGF) repeat domain and participates in many cellular processes, including nuclear import, nuclear export, mitotic progression, and regulation of gene expression. The 96 kDa nucleoporin is a scaffold component of the NPC. Proteolytic cleavage is important for targeting of the proteins to the NPC. Translocations between this gene and many other partner genes have been observed in different leukemias. Rearrangements typically result in chimeras with the N-terminal GLGF domain of this gene to the C-terminus of the partner gene. Alternative splicing results in multiple transcript variants encoding different isoforms, at least two of which are proteolytically processed. Some variants lack the region that encodes the 96 kDa nucleoporin. [provided by RefSeq, Feb 2016]

Member of: DE-3 DE-3.1
Biological processes 49 terms
RNA binding (GO:0003723)RNA export from nucleus (GO:0006405)cytosol (GO:0005829)kinetochore (GO:0000776)mRNA binding (GO:0003729)molecular condensate scaffold activity (GO:0140693)nuclear body (GO:0016604)nuclear envelope (GO:0005635)nuclear envelope (GO:0005635)nuclear inclusion body (GO:0042405)nuclear inclusion body (GO:0042405)nuclear localization sequence binding (GO:0008139)nuclear localization sequence binding (GO:0008139)nuclear membrane (GO:0031965)nuclear membrane (GO:0031965)nuclear periphery (GO:0034399)nuclear periphery (GO:0034399)nuclear pore (GO:0005643)nuclear pore (GO:0005643)nuclear pore (GO:0005643)nuclear pore complex assembly (GO:0051292)nuclear pore cytoplasmic filaments (GO:0044614)nuclear pore nuclear basket (GO:0044615)nuclear pore nuclear basket (GO:0044615)nuclear pore organization (GO:0006999)nuclear pore outer ring (GO:0031080)nuclear pore outer ring (GO:0031080)nucleocytoplasmic transport (GO:0006913)nucleocytoplasmic transport (GO:0006913)nucleocytoplasmic transport (GO:0006913)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)peptide binding (GO:0042277)positive regulation of DNA-templated transcription (GO:0045893)positive regulation of mRNA splicing, via spliceosome (GO:0048026)post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery (GO:0000973)promoter-specific chromatin binding (GO:1990841)protein binding (GO:0005515)protein import into nucleus (GO:0006606)protein import into nucleus (GO:0006606)ribonucleoprotein complex (GO:1990904)structural constituent of nuclear pore (GO:0017056)structural constituent of nuclear pore (GO:0017056)structural constituent of nuclear pore (GO:0017056)structural constituent of nuclear pore (GO:0017056)telomere tethering at nuclear periphery (GO:0034398)transcription coactivator activity (GO:0003713)
Expression (TPM)
NUP98 — as a Regulated Gene

TFs regulating NUP98 0 TFs

Transcription factors with Perturb-seq knockdown data for NUP98. 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 = NUP98 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to NUP98

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of NUP98, 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
chr11:3,580,829–3,581,470 216.2 kb Distal (>10kb) Multiome 80
chr11:3,614,331–3,614,934 183.0 kb Distal (>10kb) Multiome 150
chr11:3,641,420–3,643,023 155.3 kb Distal (>10kb) Multiome 679
chr11:3,796,972–3,798,333 255 bp At TSS Multiome 985
chr11:3,807,708–3,808,953 10.8 kb Distal (>10kb) Multiome 598
chr11:3,824,581–3,825,191 27.4 kb Distal (>10kb) Multiome 332
chr11:3,840,339–3,841,901 43.6 kb Distal (>10kb) Multiome 853
chr11:3,854,400–3,856,473 57.7 kb Distal (>10kb) Multiome 929
chr11:4,094,080–4,095,334 297.2 kb Distal (>10kb) Multiome 925

Genome Browser

Genomic view of the NUP98 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.

chr11:3,570,829 – 4,105,334
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq