Wobble Site, Degenerate Site Oligonucleotide Modification
Bio-Synthesis has extensive experience with long oligo synthesis with high ratio of degenerate sites at at various ratio. provide the standard IUPAC wobble options, as well as custom wobbles (randomers) using machine mix option or custom hand mixture at each site in your oligonucleotide as specified by our customer. These degenerate bases are often used when PCR target is not available. Degenerate primer are often used when when a sequence from one species is the basis for amplication of a homologous region or gene in another species.
Common Wobble Sites are:
| IUPAC Code |
DNA Base Mixture |
RNA Base Mixture |
| N |
A,C,G,T |
A,C,G,U |
| B |
C,G,T |
C,G,U |
| D |
A,G,T |
A,G,U |
| H |
A,C,T |
A,C,U |
| V |
A,C,G |
A,C,G |
| M |
A,C |
A,C |
| R |
A,G |
A,G |
| W |
A,T |
A,U |
| S |
C,G |
C,G |
| Y |
C,T |
C,U |
| K |
G,T |
G,U |
Other alternative method such as universal base can also be use along with, or instead of the mixed base approach:
- Commonly used universal bases are:
- 3-nitropyrrole
- 5-nitroindole
- 2'-deoxyinosine, pyroolindine, K-2'-deoxyribose, P-2'-doexyribose, 2'-deoxynebularine, 2'-deoxyisoguanosine
Product Information
Wobble Site, Degenerate Site Oligonucleotide Modification
-20°C To -70°C
Oligonucleotides are stable in solution at 4°C for up to 2 weeks. Properly reconstituted material stored at -20°C should be stable for at least 6 months. Dried DNA (when kept at -20°C) in a nuclease-free environment should be stable for years.
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