Table 1. PPG increases substitution on Tm of ODNs.
5′-Probe Sequence-3′ | g content | aTm°C | Tm°C | bΔTm/base | |
---|---|---|---|---|---|
|
|
|
X = PPG |
X = G |
|
1 | CCAACACTCXTXAA | 2/14 | 54.9 | 52.9 | 1.0 |
2 | CCACCCXCCTCAX | 2/13 | 60.7 | 59.7 | 0.5 |
3 | CTXTAAXTAXATATAAC | 3/17 | 51.8 | 49.5 | 0.8 |
4 | XATTACCTXXATTT | 3/14 | 50.6 | 48.8 | 0.6 |
5 | XTAAXTAXACACAXC | 4/15 | 59.5 | 53.5 | 1.5 |
6 | XTAAXTAXXCATAAC | 4/15 | 55.7 | 53.2 | 0.6 |
7 | CXXCTACATXCTXX | 5/14 | 61.1 | 58.8 | 0.5 |
8 | XTAAXTAXACXAXC | 5/15 | 62.9 | 56.7 | 1.2 |
9 | XTAAXTAXXCXCAXC | 6/15 | 65.5 | 58.2 | 1.2 |
10 | CAXXXAXCTTTXXA | 6/14 | 59.9 | 56.4 | 0.6 |
aMelting temperature (Tm) of DNA duplexes formed with ODNs containing G or PPG at the X positions. The accuracy of the Tm determination is ±0.2°C according to the instrument manufacturer (Cary 400 Bio UV/Vis Spectrophotometer, Varian, Palo Alto, CA).
bΔTm/base is the average increase in Tm per base when G is substituted with PPG.