CESSHIV-1 database

General information on HIV-1 isolate

# 2301

Accession number	EU938105
Name	04RU1121
Subtype	A
Country	Russia
Sampling year	2004

EU938105 isolate has foldings of [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [USE region] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

gttggggagt ggctaaccct cagatgctgc atataagcag ctgcttttcg ctcggtactg ggtctctctg gttagaccag atc-gagcctg ggagctctct ggctagctag ggaacccact gcttaagcct caataaagct tgccttgagt gcttaaagta gtgt

The optimal secondary structure:

The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy