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Experimental detection of RNA splicing branchpoints, the nucleotide serving as the nucleophile in the first catalytic step of splicing, is difficult. To date, annotations exist for only 16-21% of 3' splice sites in the human genome and even these limited annotations have been shown to be plagued by noise.
(Paggi and Bejerano, 2017) A sequence-based, deep learning model accurately predicts RNA splicing branchpoints. bioRxiv.