This gene encodes a protein that is essential for nonsense-mediated mRNA decay (NMD); a process whereby transcripts with premature termination codons are targeted for rapid degradation by a mRNA decay complex. The mRNA decay complex consists, in part, of this protein along with proteins SMG5 and UPF1. The N-terminal domain of this protein is thought to mediate its association with SMG5 or UPF1 while the C-terminal domain interacts with the mRNA decay complex. This protein may therefore couple changes in UPF1 phosphorylation state to the degradation of NMD-candidate transcripts. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Aug 2011]
Transcription factors with Perturb-seq knockdown data for SMG7. 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 = SMG7 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 SMG7, 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 |
|---|---|---|---|---|
| chr1:183,185,705–183,186,607 | 286.3 kb | Distal (>10kb) Multiome | 380 | |
| chr1:183,234,634–183,235,337 | 237.5 kb | Distal (>10kb) Multiome | 407 | |
| chr1:183,281,539–183,282,030 | 190.8 kb | Distal (>10kb) Multiome HiCAR | 301 | |
| chr1:183,331,081–183,331,905 | 141.0 kb | Distal (>10kb) Multiome | 224 | |
| chr1:183,417,849–183,418,699 | 54.2 kb | Distal (>10kb) Multiome | 267 | |
| chr1:183,470,141–183,470,554 | 1.9 kb | Proximal (<10kb) | 520 | |
| chr1:183,471,010–183,473,189 | 356 bp | At TSS Multiome | 1169 | |
| chr1:183,635,123–183,636,512 | 163.4 kb | Distal (>10kb) Multiome | 923 |
Genomic view of the SMG7 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.