CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1962
Accession number AF239640
Name PAIR6_MOTHER
SubtypeU
CountryTanzania
Sampling year 1996
Patient6-mother

AF239640 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:

ctaaccctca gatgctgcat ataagcagct gctttttgcc tgtactgggt ctctcttgtt agaccagatt tgagcctgag agctctctgg ctagctaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccat ctgttgtgtg actctggtaa

Isolates with identical sequences of region:

AF254707(#1495) AF254731(#1518)

The optimal secondary structure:


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