CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 770
Accession number AB253647
Name pJPDR1873AE01
SubtypeCRF01_AE
CountryJapan
Submitted to NCBI 2006
PatientDR1873

AB253647 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 cttgattaga ccaggtc-gag cccgggagct ctctggctag caagggaacc cactgcttaa gcctcaataa agcttgcctt gagtgcttaa agtggtgtgt gcccatttgt gtcaggactc tggtaa

Isolates with identical sequences of region:

AB253648(#771) AB253651(#774) AB253657(#780) AB253658(#781)

The optimal secondary structure:


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