CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 2413
Accession number FJ615002
Name 04HAS1_4195s1
SubtypeCRF02_AG
CountrySouth Korea
Sampling year 2004
PatientHAS

FJ615002 isolate has foldings of [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 USE region

The primary sequence:

cttggggagt ggctagccct cagaagctgc atataagcag ccgcttctcg cctgtactgg gtctctcttg ctagaccaga tctgagcctg ggagctctct gactagcagg ggaacccact gcttaagcct caataaagct tgccttgagt gcttcaagta gtgt

Isolates with identical sequences of region:

FJ615001(#2412)

The optimal secondary structure:


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