This gene encodes a protein that contains a RUN domain and a FYVE-type zinc finger domain. The encoded protein binds to phosphatidylinositol-3-phosphate (PI3P) and plays a role in early endosomal trafficking, tethering and fusion through interactions with small GTPases including Rab4, Rab5 and Rab14. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Dec 2011]
Transcription factors with Perturb-seq knockdown data for RUFY1. 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 = RUFY1 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 RUFY1, 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 |
|---|---|---|---|---|
| chr5:179,343,699–179,345,989 | 206.4 kb | Distal (>10kb) Multiome | 321 | |
| chr5:179,530,398–179,530,934 | 19.9 kb | Distal (>10kb) Multiome | 322 | |
| chr5:179,549,624–179,551,424 | 250 bp | At TSS Multiome | 799 | |
| chr5:179,559,012–179,560,188 | 9.1 kb | Proximal (<10kb) Multiome | 624 | |
| chr5:179,622,406–179,625,135 | 72.2 kb | Distal (>10kb) Multiome | 1217 | |
| chr5:179,678,118–179,679,585 | 128.0 kb | Distal (>10kb) Multiome | 1007 | |
| chr5:179,698,113–179,699,498 | 148.2 kb | Distal (>10kb) Multiome | 1062 | |
| chr5:179,732,076–179,733,697 | 182.2 kb | Distal (>10kb) Multiome | 820 | |
| chr5:179,795,059–179,796,988 | 245.7 kb | Distal (>10kb) Multiome | 778 | |
| chr5:179,805,642–179,807,610 | 256.4 kb | Distal (>10kb) Multiome | 747 | |
| chr5:179,818,809–179,822,095 | 270.3 kb | Distal (>10kb) Multiome | 1243 | |
| chr5:179,858,283–179,859,465 | 308.3 kb | Distal (>10kb) Multiome | 923 |
Genomic view of the RUFY1 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.