The protein encoded by this gene belongs to the UPF0606 family. This gene has been found to be fused to the BRAF oncogene in many cases of pilocytic astrocytoma. The fusion results from 2Mb tandem duplications at 7q34. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2012]
Transcription factors with Perturb-seq knockdown data for KIAA1549. 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 = KIAA1549 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 KIAA1549, 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 |
|---|---|---|---|---|
| chr7:138,773,729–138,774,234 | 207.3 kb | Distal (>10kb) Multiome | 243 | |
| chr7:138,797,807–138,798,337 | 183.3 kb | Distal (>10kb) Multiome | 145 | |
| chr7:138,975,436–138,975,995 | 5.4 kb | Proximal (<10kb) | 104 | |
| chr7:138,980,951–138,982,350 | 188 bp | At TSS Multiome | 525 | |
| chr7:139,034,996–139,036,579 | 54.7 kb | Distal (>10kb) Multiome | 626 | |
| chr7:139,090,840–139,094,844 | 112.3 kb | Distal (>10kb) Multiome | 732 | |
| chr7:139,108,547–139,110,090 | 128.3 kb | Distal (>10kb) Multiome | 920 | |
| chr7:139,124,120–139,124,640 | 143.1 kb | Distal (>10kb) Multiome | 304 | |
| chr7:139,133,422–139,134,016 | 152.3 kb | Distal (>10kb) Multiome | 936 | |
| chr7:139,230,473–139,232,505 | 249.7 kb | Distal (>10kb) Multiome | 971 |
Genomic view of the KIAA1549 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.