CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 893
Accession number AB253715
Name pJPDR2192AEE11
SubtypeCRF01_AE
CountryJapan
Submitted to NCBI 2006
PatientNH19-203

AB253715 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 ctagactaag ta-aaaatctc tagcagtggc gcccgaacag ggacttgaaa gtgaaagtta atagggactc gaaagcggaa ggtt---ccagag aagttctctc gacgcaggac

Isolates with identical sequences of region:

AB253704(#882) AB253710(#888)

The optimal secondary structure:


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