This gene encodes a protein that likely plays a role in NF-kappa-B signaling. Mutations in this gene have been associated with autosomal-recessive cognitive disability. Alternatively spliced transcript variants have been described.[provided by RefSeq, Feb 2010]
Transcription factors with Perturb-seq knockdown data for TRAPPC9. 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 = TRAPPC9 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 TRAPPC9, 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 |
|---|---|---|---|---|
| chr8:140,251,552–140,253,174 | 205.2 kb | Distal (>10kb) Multiome | 222 | |
| chr8:140,456,908–140,458,690 | 163 bp | At TSS Multiome | 958 | |
| chr8:140,463,628–140,465,358 | 6.9 kb | Proximal (<10kb) Multiome | 951 | |
| chr8:140,510,454–140,512,419 | 54.1 kb | Distal (>10kb) Multiome | 1085 | |
| chr8:140,634,296–140,636,707 | 178.3 kb | Distal (>10kb) Multiome | 750 | |
| chr8:140,637,252–140,637,924 | 179.9 kb | Distal (>10kb) Multiome | 409 |
Genomic view of the TRAPPC9 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.