C6ORF55 encodes a protein involved in trafficking of the multivesicular body, an endosomal compartment involved in sorting membrane proteins for degradation in lysosomes (Ward et al., 2005 [PubMed 15644320]).[supplied by OMIM, Mar 2008]
Transcription factors with Perturb-seq knockdown data for VTA1. 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 = VTA1 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 VTA1, 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 |
|---|---|---|---|---|
| chr6:141,956,346–141,958,122 | 190.1 kb | Distal (>10kb) Multiome | 175 | |
| chr6:142,014,564–142,016,190 | 132.1 kb | Distal (>10kb) Multiome | 335 | |
| chr6:142,146,802–142,147,679 | 26 bp | At TSS Multiome | 1022 | |
| chr6:142,155,667–142,156,439 | 8.4 kb | Proximal (<10kb) | 177 | |
| chr6:142,156,543–142,156,727 | 9.3 kb | Proximal (<10kb) | 45 | |
| chr6:142,232,181–142,233,204 | 85.4 kb | Distal (>10kb) Multiome | 349 | |
| chr6:142,300,903–142,303,069 | 154.6 kb | Distal (>10kb) Multiome | 950 |
Genomic view of the VTA1 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.