This gene encodes a member of the YTH (YT521-B homology) superfamily containing YTH domain. The YTH domain is typical for the eukaryotes and is particularly abundant in plants. The YTH domain is usually located in the middle of the protein sequence and may function in binding to RNA. In addition to a YTH domain, this protein has a proline rich region which may be involved in signal transduction. An Alu-rich domain has been identified in one of the introns of this gene, which is thought to be associated with human longevity. In addition, reciprocal translocations between this gene and the Runx1 (AML1) gene on chromosome 21 has been observed in patients with acute myeloid leukemia. This gene was initially mapped to chromosome 14, which was later turned out to be a pseudogene. Alternatively spliced transcript variants encoding different isoforms have been identified in this gene. [provided by RefSeq, Oct 2012]
Transcription factors with Perturb-seq knockdown data for YTHDF2. 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 = YTHDF2 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 YTHDF2, 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 |
|---|---|---|---|---|
| chr1:28,505,412–28,506,885 | 231.0 kb | Distal (>10kb) Multiome | 969 | |
| chr1:28,513,136–28,516,505 | 221.4 kb | Distal (>10kb) Multiome | 461 | |
| chr1:28,517,302–28,519,364 | 218.6 kb | Distal (>10kb) Multiome | 927 | |
| chr1:28,552,370–28,553,806 | 184.0 kb | Distal (>10kb) Multiome | 955 | |
| chr1:28,580,985–28,582,501 | 155.1 kb | Distal (>10kb) Multiome | 1080 | |
| chr1:28,592,018–28,592,768 | 144.5 kb | Distal (>10kb) Multiome | 394 | |
| chr1:28,642,403–28,643,726 | 93.8 kb | Distal (>10kb) Multiome | 980 | |
| chr1:28,648,003–28,650,002 | 88.1 kb | Distal (>10kb) Multiome | 1377 | |
| chr1:28,667,742–28,669,783 | 68.5 kb | Distal (>10kb) Multiome | 804 | |
| chr1:28,736,098–28,738,080 | 230 bp | At TSS Multiome | 1106 | |
| chr1:28,811,880–28,812,661 | 75.4 kb | Distal (>10kb) Multiome | 219 | |
| chr1:28,881,894–28,882,433 | 145.3 kb | Distal (>10kb) Multiome | 615 | |
| chr1:28,886,723–28,888,425 | 151.3 kb | Distal (>10kb) Multiome | 709 | |
| chr1:28,913,920–28,915,470 | 177.5 kb | Distal (>10kb) Multiome | 738 |
Genomic view of the YTHDF2 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.