CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1364
Accession number AB191674
Name 00ZM-M7
SubtypeC
CountryZambia
Sampling year 2000

AB191674 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 Complete poly(A) region

The primary sequence:

ccagccctca gatgctgcat ataagcagct gcttttcgct tgtgctgggt ctctctaggt agaccagatc tgagcccggg agctctctgg ctatctgggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tctaagtagt gtgtgcccat ctgttgtgtg actctggtag

The optimal secondary structure:


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