CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1552
Accession number AM076851
Name PG6_10
SubtypeC
CountryMozambique
Sampling year 2003
PatientPG6

AM076851 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:

ac-ggggagtg gc-agccctca gatgctgcat ataagcagct gcttttcgcc tgtactgggt ctctctaggt agaccagatc tgagcccggg agctctctgg ctgcttaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tttaagtagt gt

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012