CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2967
Accession number FJ432064
Name NII_PGI_IND_VTD8
SubtypeC
CountryIndia
Sampling year 2008
PatientVTD8

FJ432064 isolate has foldings of [Core poly(A) site] [USE domain, TAR, polyA] [USE region] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing Core poly(A) site

The primary sequence:

ctgggtctct ctaggtagac cagatctgag cctgggagct ctctggctat ctagggaacc cactgcttaa gcctcaataa agcttgcctt gagtgctctg agcagtgtgt gcccgtctat tgtgtgactc tggtaa

Isolates with identical sequences of region:

AB023804(#71) EU574917(#3024) EU835832(#2958) EU835837(#2962) EU835843(#3032) FJ210864(#3000) FJ210866(#3043) FJ210867(#3044) FJ432056(#2966) FJ432057(#3047) FJ432063(#3053)

The optimal secondary structure:


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