CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 932
Accession number AB287366
Name p05JPDR7060B33
SubtypeB
CountryJapan
Sampling year 2005
PatientNH0020

AB287366 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 tcagacattt gtagtcagtg tggaaaatct ctagcagtgg cgcccgaaca gggacttgaa aacgaaagta gaaccagagg agatctctcg acgcaggac

Isolates with identical sequences of region:

AB287367(#933)

The optimal secondary structure:


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