CESSHIV-1 database

General information on HIV-1 isolate

# 16

Accession number	M38431
Name	NY5CG
Subtype	B
Country	USA
Sampling year	1984
Patient	NY5

M38431 isolate has foldings of [DIS region] [PBS region] [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:

actggggagt ggcgagccct cagatgctgc atataagcag ctgctttttg cctgtactgg gtctctctgg ttagaccaga tctgagcctg ggagctctct ggctagctag ggaacccact gcttaagcct caataaagct tgccttgagt gctacaagta gtgt

The optimal secondary structure:

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