CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1975
Accession number AF239653
Name PAIR3_INFANT
SubtypeA
CountryTanzania
Sampling year 1996
Patient3-baby

AF239653 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 Core poly(A) site

The primary sequence:

ctgggtctct cttgttagac cagatc-gagc ctgggagctc tctggctagc -agggaaccca ctgcttaagc ctcaataaag cttgccttga gtgcctaaag cagtgtgtgc ccgtctgttg tatgactctg gtaa

Isolates with identical sequences of region:

AF239635(#1957)

The optimal secondary structure:


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