CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1622
Accession number EU047602
Name 98CSR10_3139
SubtypeB
CountrySouth Korea (USA)
Sampling year 1998
PatientHP-21(CSR)

EU047602 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:

tgttgtgtga ctctggtaac tagagatccc tcagacactt ttagtcagtg tggaaaatct ctagcagtgg cgcccgaaca gggacccgaa agcgaaagga aaaccagagg agctctctcg acgcagaac

The optimal secondary structure:


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