CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1791
Accession number EF370356
Name 06LKD3_2764
SubtypeB
CountrySouth Korea
Sampling year 2006
PatientLKD-B

EF370356 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 tcagaccact ctagactgcg ta-aaaatctc tagcagtggc gcccgaacag ggaccggaag ttaataggga ctcgaaagcg aaagtt---ccag agaagctctc tcgacgcagg gac

Isolates with identical sequences of region:

EF370355(#1790) FJ614912(#2335)

The optimal secondary structure:


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