Author: Theis, Corinna; Reeder, Jens; Giegerich, Robert
Title: KnotInFrame: prediction of -1 ribosomal frameshift events Document date: 2008_9_27
ID: 4ov0j2u3_13
Snippet: We analyzed all available sequence and structure information in order to extract the consensus information displayed in Figure 1 . The slippery sequence has the consensus X XXY YYZ, where XXX stands for any three identical nucleotides, YYY for either three As or three T/Us and Z for any nucleotide. The spacer region must contain at least 1 nt and not more than 12 nt. The stem and loop regions are chosen to include all but two examples which have .....
Document: We analyzed all available sequence and structure information in order to extract the consensus information displayed in Figure 1 . The slippery sequence has the consensus X XXY YYZ, where XXX stands for any three identical nucleotides, YYY for either three As or three T/Us and Z for any nucleotide. The spacer region must contain at least 1 nt and not more than 12 nt. The stem and loop regions are chosen to include all but two examples which have unusually large loop sizes (see Supplementary Table S1 ). It should be noted that loops 2 and 3 are large enough to further fold internally and thus, can have a stabilizing effect on the overall structure. For example, the pseudoknot of the SARS coronavirus frameshift signal contains an additional third stem in loop 3 (15) .
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