CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3305
Accession number DQ287293
Name C54_8_1997
SubtypeB
CountryAustralia
Sampling year 1997
PatientC54

DQ287293 isolate has foldings of [Core poly(A) site] [USE domain, TAR, polyA] [USE region] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

actggggagg ggcgagccct cagatgctgc atataagcag ctgctttctg cctgtactgg gtctctctgg ttagaccaga tctgagcctg ggagctctct ggctaactag ggaacccact gcttaagcct caataaagct tgccttgagt gcttcaagta gtgt

Isolates with identical sequences of region:

DQ287288(#3474) DQ287289(#3293) DQ287290(#3302) DQ287291(#3303) DQ287292(#3304) DQ287294(#3306)

The optimal secondary structure:


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