CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1173
Accession number AB191647
Name 00ZM-LN
SubtypeC
CountryZambia
Sampling year 2000

AB191647 isolate has foldings of [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 227 nt 3' terminus

The primary sequence:

ccagccctca gatgctgcat ataagcagcc gcttttcgct tgtactgggt ctctcttggt agaccagatc tgagcctggg agctctctgg ctatctagag aacccactgc ttaagcctca ataaagcttg ccttgagtgc tctaagtagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagaccat tttggt-agtg tggaaaatct ctagca

The optimal secondary structure:


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