CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 956
Accession number DQ314732
Name 01AETH04BKM
SubtypeCRF01_AE
CountryThailand
Sampling year 2004

DQ314732 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 Core poly(A) site

The primary sequence:

ctgggtctct cttgttagac caggtc-gagc ccgggagctc tctggatagc aagggaaccc actgcttaaa gcctcaataa agcttgcctt gagtgcttaa agtggtgtgt gcccgtctgt gtttggactc tggtaa

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012