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Nucleic Acids Research, 1987, Vol. 15, No. 20 8167-8176
© 1987

Articles

The stability of oligodeoxyribonucleotide duplexes containing degenerate bases

N.N. Anand, D.M. Brown and S.A. Salisbury

MRC Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH and University Chemical Laboratory Lensfield Road, Cambridge, UK

Received August 17, 1987. Revised September 25, 1987. Accepted September 25, 1987.

Oligodeoxyribonucleotides containing N4-methoxycytosine (mo4C), N4-methoxy-5-methylcytosine (mo4m5C) and other base-analogues were synthesised and used to compare the stabilities of duplexes containing mo4C.A and mo4C.G base pairs with those containing normal and mismatch pairs. The Tm values and other thermodynamic parameters are recorded. The otherwise identical duplexes containing a mo4C.A and a mo4C.G base pair have closely similar stabilities to each other and to the corresponding duplexes containing normal base pairs, considerably greater than the stabilities of those containing mismatch pairs. Corresponding observations are recorded in dot-blot experiments using M13 cloned DNA carrying an insert complementary to the oligonucleotides; approximate Td values are given.


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 Proc. Natl. Acad. Sci. USAHome page
F. Hill, D. Loakes, and D. M. Brown
Polymerase recognition of synthetic oligodeoxyribonucleotides incorporating degenerate pyrimidine and purine bases
PNAS, April 14, 1998; 95(8): 4258 - 4263.
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