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According to a 2011 review1 alterntive polyadenylation sites can be located upstream of the 3'UTR (i.e. within introns or exons). When these sites are used it results in transcripts missing exons at the 3' end and can force alternative splicing. This alters the final protein product. This figure from that paper may help make this clearer. Figure 1. ...


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Starting from what appears to be your main question: Can I use SNPs associated with a gene's higher expression to compute the likelihood of that gene being expressed in the brain region? I would strongly advise against using SNPs determine if genes are expressed (at all) in a given tissue.For one thing SNPs that affect expression (then often called eQTLs)...


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