CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2372
Accession number FJ614953
Name 06MHI9_3191
SubtypeCRF02_AG
CountrySouth Korea (Africa)
Sampling year 2006
PatientMHI

FJ614953 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 PBS domain

The primary sequence:

tgttgtgtga ctctggtaac tagagatccc tcagaccatt ctagcttgag ta-aaaatctc tagcagtggc gcccgaacag ggacttgaag ttaataggga ctcgaaagcg aaagtt---ccag agaagctctc ttgacgcaaa gac

Isolates with identical sequences of region:

FJ614952(#2371) FJ614963(#2385)

The optimal secondary structure:


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