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Table 1 Primer oligonucleotide sequences of selected aptamers

From: Structural transformation induced by locked nucleic acid or 2′–O-methyl nucleic acid site-specific modifications on thrombin binding aptamer

Molecule[a] Nucleotide sequence
TBA 5'-GGTTGGTGTGGTTGG-3'
g1 (2) 5'-GgTTGGTGTGGTTGG-3'
g1 (11) 5'-GGTTGGTGTGgTTGG-3'
g2 (2, 11) 5'-GgTTGGTGTGgTTGG-3'
g2 (5, 11) 5'-GGTTgGTGTGgTTGG-3'
g2 (10, 11) 5'-GGTTGGTGTggTTGG-3'
g2 (11, 14) 5'-GGTTGGTGTGgTTgG-3'
g4 (2, 5, 11, 14) 5'-GgTTgGTGTGgTTgG-3'
g8 (1, 2, 5, 6, 10, 11, 14, 15) 5'-ggTTggTGTggTTgg-3'
  1. [a]DNA and nucleotide derivatives are in upper and lower cases, respectively. N of gN represents the number of substitutions, and numbers in parentheses represent the modified positions marked in Figure 1A. In this case, g can be either L or M when the specified residues are substituted with LNA or OMeNA. In this study, a series of modified TBAs containing single, double, four or eight LNA or OMeNA substitutions at the designated positions (Table 1) were structurally analyzed. TBA g1 (2) and g1 (11) represent a single impactive substitution at position 2 or 11 of TBA, respectively. By the same token, TBA g2 indicates double substitutions with a specified combination: two diagonal positions 2 and 11 in the same tetrad plane g2 (2, 11), two adjacent positions in the same tetrad plane g2 (5, 11) and g2 (11, 14), and two stacked positions in two tetrad planes g2 (10, 11). TBA g4 and g8 symbolize four and eight substitutions in one and two tetrad planes, respectively.