CESSHIV-1 database

General information on HIV-1 isolate

# 15

Accession number	M38429
Name	JRCSF
Subtype	B
Country	USA
Sampling year	1986
Patient	JR

M38429 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 cgaaa-ttttg actagcggag gctagaagga gaga

Isolates with identical sequences of region:

AY508126(#3517) AY508132(#3523) AY508133(#3524) AY508134(#3525) AY508137(#3528) AY508139(#3530) AY508140(#3531) AY508144(#3535) AY508146(#3537) AY508147(#3538) AY508149(#3540) AY508150(#3541) AY508153(#3544) AY508154(#3545) AY508158(#3549)

The optimal secondary structure:

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