CESSHIV-1 database

General information on HIV-1 isolate

# 1563

Accession number	AM076861
Name	PG187_27
Subtype	C
Country	Mozambique
Sampling year	2003
Patient	PG187

AM076861 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 tgctgaagtg cactcggcaa gaggcgagag -cggcggctgg tgagtacgcc aatttttatt tgactagcgg aggctagaag gagaga

Isolates with identical sequences of region:

AB485645(#2725) AB485646(#2726) AB485647(#2727) AF443105(#203) AF443115(#213) AM076847(#1547) AY228556(#311) AY585267(#347) AY772698(#411) AY838566(#424) AY857174(#1659) AY878061(#519) DQ011176(#466) DQ056405(#475) DQ056413(#483) DQ275655(#1233) DQ275664(#1242) DQ369996(#662) DQ396376(#698) EU110086(#1031) GQ999976(#3366)

The optimal secondary structure:

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