CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2946
Accession number EU835819
Name mnp02
SubtypeC
CountryIndia
Submitted to NCBI 2008
Patientmnp02

EU835819 isolate has foldings of [Core poly(A) site] [USE domain, TAR, polyA] [USE region] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing USE region

The primary sequence:

actgga-agtg gtcaaccctc aaatgctgca tataagcagc tgcttttcgc ttgtacgggg tctctctagg taaaccaaat ctgagcctgg gagctctctg gctatctaga aaacccactg cttaagcctc aataaagctt gctttaagtg ctctgagcag tgt

The optimal secondary structure:


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