CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2465
Accession number L28897
Name 4A22
SubtypeB
CountryUSA
Submitted to NCBI 1994
Patient4

L28897 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:

ctggggagtg acgagccctc agatgctgca ataacagcca tccgcttttt gcctgtactg ggtctctctg gttagaccag atctgagcct gggagctctc tggctaacta gggaacccac tgcttaagcc tcaataaagc ttgccttgag tgctttaagt agtgtgtgcc cgtctattgt gtgactctgg taactagaga tccctcagac ccctttagtc agtgtggaaa atctctagca

The optimal secondary structure:


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