CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1089
Accession number BD410064
Name HXB2_patent
SubtypeB
CountryJapan
Submitted to NCBI 2003
PatientLAI
CommentsPatent

BD410064 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 Complete poly(A) region

The primary sequence:

cgagccctca gatcctgcat ataagcagct gctttttgcc tgtactgggt ctctctggtt agaccagatc tgagcctggg agctctctgg ctaactaggg aacccactgc ttaagcctca ataaagcttg ccttgagtgc ttcaagtagt gtgtgcccgt ctgttgtgtg actctggtaa

Isolates with identical sequences of region:

AX316202(#1083) AX772015(#1086) CS793683(#3475) CS793684(#1093) DM461230(#3476) DM461231(#3477) FB341548(#1902) FB707281(#1903) HH978650(#3848) K03455(#1182) L28908(#2476) U24466(#2380) U24467(#2381) U24468(#2488) U24469(#2489) U24471(#2491) U24472(#2492) U24473(#2493) U24478(#2495) U24479(#2496) U24480(#2497) X01762(#64)

The optimal secondary structure:


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

STCU 2008-2010
Institute of Molecular Biology and Genetics 2008-2012