CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 3284
Accession number AB565478
Name pJPDR0796B02
SubtypeB
CountryJapan
Submitted to NCBI 2010
PatientDR0796

AB565478 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 DIS SD and Psi hairpins

The primary sequence:

ggactcggct tgctgaagcg cgcacagcaa gaggcgaggg gcggcgactg gtgagtacgc caaat-ttttg actagcggag gctagaagga gaga

Isolates with identical sequences of region:

AY857057(#1635) EF178327(#1614) EF637048(#987) EU047641(#1839) GU733713(#3313) GU733714(#3319) GU733715(#3320) GU733716(#3321) GU733717(#3322)

The optimal secondary structure:


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