CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 781
Accession number AB253658
Name pJPDR1873AE51
SubtypeCRF01_AE
CountryJapan
Submitted to NCBI 2006
PatientDR1873

AB253658 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 USE region

The primary sequence:

gttggggagt ggctaaccct cagatgctgc ataaaagcag ccgcttttcg cttgtactgg gtctctcttg attagaccag gtc-gagcccg ggagctctct ggctagcaag ggaacccact gcttaagcct caataaagct tgccttgagt gcttaaagtg gtgt

Isolates with identical sequences of region:

AB253647(#770) AB253648(#771) AB253651(#774) AB253657(#780)

The optimal secondary structure:


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