Table 1. Sequences and affinities of representative TBAs recovered from libraries A−E.
| Aptamer * |
Sequence† |
Kd (nM)‡ |
|---|---|---|
| Library A: TCGCCTTGCCGGATCGCAGA(random region)TGGTCCGTGAGCCTGACACC | ||
| A#1,2,3,4,6 |
GAATCAGGTTCACGTTGGTTCGGTTGGTAT |
3.1 |
| A#5,14 |
TTGTCAGGTGGCTTCGTGGTTCGGTTGGTG |
1.9 |
| A#8,9,11,12,13,16 | TCGTGGCAGGATCCGTTGGTTTTGGTTGGG | 7.9 |
| Library B: TCGCCTTGCC GGATCGCAGA (random region) TGGTCCGTGA GCCTGACACC | ||
|---|---|---|
| B#1,8 |
TCGTGGCAGGATCCGTTGGTTTTGGTTGGG |
3.7 |
| B#2,15 |
GGGCACTTGGCTGGTTGGTGGGTTTTGCCC |
5.0 |
| B#3,5,6,10,12,14 |
GAATCAGGTTCACGTTGGTTCGGTTGGTAT |
3.3 |
| B#4 |
GTGTGGTGGGTTGGCTCTGGGTGACCTCTG |
1.9 |
| B#11 | AGTGGCCGGCTCCGCGTGGGGGGTTGGGTT | 2.1 |
| Library C: TCGCCTTGCC GGATCGCAGA(random region)tGGtCCGtGA GCCtGACACC | ||
|---|---|---|
| C#1 |
AAGCAGCtCGCGtACGAAtttttGttGGtA |
0.57 |
| C#2,11 |
GtGGGGAtCtCtGtttAtCCACttCAGtGC |
2.6 |
| C#4 |
GGGAGGCACGCGAtGCGAGtttACCCtACG |
2.9 |
| C#5,14,20 |
ttCGGGGGCGCtCCCCtCAtGtttACCCtAG |
10 |
| C#7 |
GGGAGGGCAGCGGCAGAttGGCGGttAGGC |
34 |
| C#8 |
CttGttAtACGGtCtCttGGCCCGGttGGC |
4.3 |
| C#9 |
tGGCCCCCCGtttGCGGttttttCGtAGGC |
7.5 |
| C#10 | ttCtAGGGAAAGGCtCGCtttttGttGGtA | 1.7 |
| Library D: TCGCCTTGCC GGATCGCAGA (random region) tGGtCCGtGA GCCtGACACC | ||
|---|---|---|
| D#1,10 |
ttGGtCAAAGGtCCGACGAGttttGCtAGC |
2.3 |
| D#2,3 |
GCCGtGAGGACGCGCttGttGGGGGGttGt |
4.0 |
| D#6,9 |
ttGGtCGAAGGttCCGGGGtCCttAGtGGt |
0.26 |
| D#7 |
tGCGGAGtGGCCAAtCACtttttGttGGCA |
0.79 |
| D#11 |
ACGGGCGtGGCttCAtAAtttttGttGGtA |
0.50 |
| D#12 |
ttAGtCGAAGGttCCtGGCCACttAtAtCG |
0.093 |
| D#13 | CGGCCGAGGtGGCCAACGtttttGttGGtA | 0.91 |
| Library E: TCGCCTTGCC GGATCGCAGA (random region) TGGTCCGTGA GCCTGACACC ATTTTTTT | ||
|---|---|---|
| E#1,8,11,12,13,30,35,37 |
GGAGCAAGAT GTCACGGTCC GCATGCAGAG |
NB |
| E#3,18 |
CTCTTGACAG GACTCATGCA CGGGGGGGCT |
27 |
| E#6,20,25,33 |
AGTGGCTGGC TCCGCGTGGG GGGTTGGGTT |
NB |
| E#14,38 |
GAGGCAATGT GTGGGTACCG CATTACCCAGT |
NB |
| E#17 |
CTCTTAACAG GACAAGTGAA ACAAACCCGC |
23 |
| E#26 |
CACACAGGTTTGCGGCCGCTTCTGGGCAGC |
NB |
| E#23,28,32 |
CTCTTGACAG GACACATGCA CGCGGGGGCT |
20 |
| E#40 | CTCTTAACAG GACTCATGCA CGGGGGGGCT | 18 |
*
The name of each aptamer indicates the type of library used and the clone number. †Sequences are aligned in the 5′ to 3′ direction. The B/L nucleotides with adenine, guanine, cytosine, 5-methylcytosine, and thymine are enclosed in squares (A, G, C, C, and T). The C5-modified thymidine is shown in bold letters (t). ‡Kd values were determined by non-equilibrium capillary electrophoresis of equilibrium mixtures (NECEEM). NB, no binding.