Figure 3

Predicted structures of exon1 orthologues in mammals. (A) The structure predicted by PMmulti and used by Infernal. This consensus structure consists of one big arc and three substructures. In some mammals, the bottom substructure contains three small loops, but in cow, dolphin, mouse and rat, it is a big loop. The middle substructure contains three tiny loops and the top substructure contains a hairpin at its end in all animals. (B) Two structures predicted by Mfold in human. Although the overall structures are different, the hairpin structure found in the PMmulti-predicted structure invariably occurs in both structures. (C) Two structures predicted by Mfold: one in cow and one in dog. The sequence and its hairpin structure (slightly varied) occur in both structures.