. Author manuscript; available in PMC: 2009 Aug 20.

Published in final edited form as: Biochemistry. 2008 Jul 25;47(33):8614–8622. doi: 10.1021/bi800854g

Table 1.

DNA Duplex Abbreviations and Respective Sequences^a

Duplex Abbreviation	Sequence^a
U	5′-GCGCAUAGTCGG-3′ 3′-CGCGTATCAGCC-5′
P	5′-GCGGCCAAAFAAAAAAGCGC-3′ 3′-CGCCGGTTTPTTTTTTCGCG-5′
F	5′--GCGCAFAGTCG-3′ 3′-CGCGTATCAGC-5′-
Z	5′-GCGCAZAGTCG-3′ 3′-CGCGTATCAGC-5′

U-19	5′-GCGGCCAAAUAAAAAAGCGC-3′ 3′-CGCCGGTTTPTTTTTTCGCG-5′

Abbreviations: U, deoxyuracil; P, 2-aminopurine; F, tetrahydrofuran abasic site analogue; Z, 1-azadeoxyribose. The following nomenclature is used to identify the +2, +1, and −1 phosphates: 5′ GCGC⁺²-pA⁺¹pU⁻¹pAGTCGG 3′.