CESSHIV-1 DATABASE

Control Elements Secondary Structures of HIV-1 genome

General information on HIV-1 isolate

# 1903
Accession number FB707281
Name HXB2-patent
SubtypeB
CountryFrance
Submitted to NCBI 2007
PatientLAI
CommentsPatent

FB707281 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 Core poly(A) site

The primary sequence:

ctgggtctct ctggttagac cagatctgag cctgggagct ctctggctaa ctagggaacc cactgcttaa gcctcaataa agcttgcctt gagtgcttca agtagtgtgt gcccgtctgt tgtgtgactc tggtaa

Isolates with identical sequences of region:

AB221005(#685) AB253432(#914) AB485638(#2741) AF003888(#1197) AF004394(#22) AX316202(#1083) AX772015(#1086) AY610991(#2052) AY851669(#2091) AY851682(#2103) BD410064(#1089) CS793683(#3475) CS793684(#1093) D86068(#1094) DM461230(#3476) DM461231(#3477) DQ287272(#2970) DQ287288(#3474) DQ287289(#3293) DQ287290(#3302) DQ287291(#3303) DQ287292(#3304) DQ287293(#3305) DQ287294(#3306) DQ287305(#3307) DQ287306(#3001) DQ287310(#2993) DQ672623(#1433) DQ837381(#753) EF363124(#966) EF370172(#2226) EF370173(#2227) EF370174(#1708) EF370176(#1451) EF370180(#1454) EF370181(#1455) EF370211(#2233) EF370294(#2256) EU047600(#2270) EU047603(#1623) EU047604(#1624) EU047606(#1600) EU047610(#1813) EU047611(#1814) EU047612(#1815) EU047614(#1816) EU047615(#1817) EU047616(#1818) EU047617(#1819) EU047619(#1821) EU047620(#1625) EU047621(#1823) EU047623(#1825) EU047624(#1826) EU047625(#1827) EU047693(#1888) FB341548(#1902) HH978650(#3848) K02007(#20) K02083(#70) K03455(#1182) L28869(#2437) L28870(#2438) L28871(#2439) L28872(#2440) L28873(#2441) L28875(#2443) L28877(#2445) L28908(#2476) L31963(#2368) U24466(#2380) U24467(#2381) U24468(#2488) U24469(#2489) U24470(#2490) U24471(#2491) U24472(#2492) U24473(#2493) U24474(#2494) U24478(#2495) U24479(#2496) U24480(#2497) U80508(#2527) U80516(#2535) U80519(#2538) U80521(#2540) U80522(#2541) U80530(#2549) U80534(#2553) U81465(#2570) U81470(#2575) U89856(#2589) U89857(#2590) U89858(#2591) U89859(#2592) U89860(#2593) U89861(#2594) U89863(#2596) U89865(#2598) U89866(#2599) X01762(#64)

The optimal secondary structure:


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