CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 897
Accession number AB253719
Name pJPDR5032AE09
SubtypeCRF01_AE
CountryJapan
Submitted to NCBI 2006
PatientNH19-203

AB253719 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 PBS domain

The primary sequence:

tgtgttagga ctctggtaac tagagatccc tcagaccact ctagactgag ta-aaaatctc tagcagtggc gcccgaacag ggactcgaaa gtgaaagtta atagggactc gaaagcggaa ggtt---ccagag aagttctctc gacgcaggac

Isolates with identical sequences of region:

AB253717(#895) AB253718(#896) AB253720(#898) AB253722(#900) AB253723(#901) AB253724(#902) AB253725(#903)

The optimal secondary structure:


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