This gene is one member of a family of nuclear RNA export factor genes. Common domain features of this family are a noncanonical RNP-type RNA-binding domain (RBD), 4 leucine-rich repeats (LRRs), a nuclear transport factor 2 (NTF2)-like domain that allows heterodimerization with NTF2-related export protein-1 (NXT1), and a ubiquitin-associated domain that mediates interactions with nucleoporins. The LRRs and NTF2-like domains are required for export activity. Alternative splicing seems to be a common mechanism in this gene family. The encoded protein of this gene shuttles between the nucleus and the cytoplasm and binds in vivo to poly(A)+ RNA. It is the vertebrate homologue of the yeast protein Mex67p. The encoded protein overcomes the mRNA export block caused by the presence of saturating amounts of CTE (constitutive transport element) RNA of type D retroviruses. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for NXF1. 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 = NXF1 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 NXF1, 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 |
|---|---|---|---|---|
| chr11:62,508,289–62,508,878 | 296.9 kb | Distal (>10kb) Multiome | 499 | |
| chr11:62,542,658–62,543,488 | 262.5 kb | Distal (>10kb) Multiome | 537 | |
| chr11:62,545,051–62,547,562 | 258.4 kb | Distal (>10kb) Multiome | 889 | |
| chr11:62,553,213–62,553,741 | 252.0 kb | Distal (>10kb) Multiome | 489 | |
| chr11:62,555,905–62,556,742 | 249.2 kb | Distal (>10kb) Multiome | 545 | |
| chr11:62,560,588–62,561,104 | 244.8 kb | Distal (>10kb) Multiome | 541 | |
| chr11:62,561,760–62,562,358 | 243.4 kb | Distal (>10kb) Multiome | 43 | |
| chr11:62,573,347–62,574,645 | 231.4 kb | Distal (>10kb) Multiome | 845 | |
| chr11:62,591,246–62,592,462 | 213.7 kb | Distal (>10kb) Multiome | 976 | |
| chr11:62,600,988–62,603,291 | 203.5 kb | Distal (>10kb) Multiome | 872 | |
| chr11:62,611,665–62,613,544 | 192.6 kb | Distal (>10kb) Multiome | 737 | |
| chr11:62,621,550–62,622,445 | 183.4 kb | Distal (>10kb) Multiome | 964 | |
| chr11:62,646,025–62,647,031 | 158.8 kb | Distal (>10kb) Multiome | 815 | |
| chr11:62,652,836–62,653,744 | 152.1 kb | Distal (>10kb) Multiome | 921 | |
| chr11:62,664,567–62,666,291 | 140.2 kb | Distal (>10kb) Multiome | 1020 | |
| chr11:62,671,328–62,672,522 | 133.7 kb | Distal (>10kb) Multiome | 882 | |
| chr11:62,705,543–62,707,930 | 99.1 kb | Distal (>10kb) Multiome | 760 | |
| chr11:62,708,691–62,710,293 | 95.8 kb | Distal (>10kb) Multiome | 531 | |
| chr11:62,726,557–62,728,947 | 77.9 kb | Distal (>10kb) Multiome | 1088 | |
| chr11:62,753,347–62,754,665 | 51.3 kb | Distal (>10kb) Multiome | 696 | |
| chr11:62,761,085–62,762,045 | 44.0 kb | Distal (>10kb) Multiome | 649 | |
| chr11:62,770,753–62,772,068 | 34.0 kb | Distal (>10kb) Multiome | 885 | |
| chr11:62,786,365–62,787,860 | 18.9 kb | Distal (>10kb) Multiome | 1073 | |
| chr11:62,791,569–62,792,385 | 13.5 kb | Distal (>10kb) Multiome | 805 | |
| chr11:62,804,451–62,807,080 | 60 bp | At TSS Multiome | 994 | |
| chr11:62,831,037–62,832,904 | 26.5 kb | Distal (>10kb) Multiome | 870 | |
| chr11:62,839,042–62,842,743 | 35.9 kb | Distal (>10kb) Multiome | 1403 | |
| chr11:62,851,028–62,851,955 | 46.0 kb | Distal (>10kb) Multiome | 421 | |
| chr11:62,855,209–62,856,560 | 50.5 kb | Distal (>10kb) Multiome | 1071 | |
| chr11:62,862,252–62,862,948 | 57.2 kb | Distal (>10kb) Multiome | 360 | |
| chr11:62,880,343–62,881,977 | 75.4 kb | Distal (>10kb) Multiome | 1080 | |
| chr11:62,909,033–62,909,985 | 103.9 kb | Distal (>10kb) Multiome | 366 |
Genomic view of the NXF1 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.