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. 2014 Jul 29;42(15):10073–10085. doi: 10.1093/nar/gku664

Figure 2.

Figure 2.

The long form of box C/D snoRNA (snoRNAL) features extended base pairing downstream of the k-turn structural motif. (A) The long and short snoRNA forms share the basic structural features of box C/D snoRNA. The characteristic box C, box D and k-turn were identified and their level of sequence conservation in each class of snoRNA was determined using the sequence obtained from the SKOV3ip1 cell line. The number and percent of snoRNAs displaying each feature are shown. Only predominant snoRNA forms expressed above 1 CPM in both replicates were counted. (B) The snoRNAL form features more stable k-turn structure. The length of the external stem was measured using SKOV3ip1 RNA for snoRNAs only expressed as short or only expressed as long forms. The proportion of snoRNAs from these two groups is expressed as a function of the number of paired nucleotides in their external stem. (C) Schematic representation of the external stem observed in snoRNAs only expressed as long or short snoRNA forms. The percentage of snoRNAs containing the different number of base pairs downstream of box D is shown on the right of each form. The orange and blue boxes indicate the position of the C and D motifs, respectively.