CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1057
Accession number AB052601
Name 98THot054
SubtypeCRF01_AE
CountryThailand
Sampling year 1998

AB052601 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 Complete poly(A) region

The primary sequence:

ctaaccctca gatgctgcat a-aagcagccg cttttcgctt gtactgggtc tctcttgtta gaccaggtc-g agcccgggag ctctctggct agcaagggaa cccactgctt aaagcctcaa taaagcttgc cttgagtgct taaagtggtg tgtgcccgtc tgtgttagga ctctggtaa

The optimal secondary structure:


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