CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 940
Accession number AB286850
Name p04JPDR5782C39
SubtypeCU
CountryJapan
Sampling year 2004
Patient5782

AB286850 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 227 nt 3' terminus

The primary sequence:

ctgaccctca gatgctgcat ataagcagct gcttttcgct tgtactgggt ctctctagtt ggaccagatc tgagcctggg agctctctgg ctaactgggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc tctgagcagt gtgtgcccgt ctgttgtgtg actctggtaa ctagagatcc ctcagacc-tt ttagtcagtg tggaaaatct ctagca

Isolates with identical sequences of region:

AB286849(#939)

The optimal secondary structure:


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