Sequence of pLK

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Sequence of pLK

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Sequence of pLKO.1 puro : 7032 BP; 1800 A; 1742 C; 1856 G; 1634 T; 0 other;

.......... .......... .......... .......... .......... ..........

1 ttggggttgc gccttttcca aggcagccct gggtttgcgc agggacgcgg ctgctctggg 60

1 aaccccaacg cggaaaaggt tccgtcggga cccaaacgcg tccctgcgcc gacgagaccc 60

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

61 cgtggttccg ggaaacgcag cggcgccgac cctgggtctc gcacattctt cacgtccgtt 120

61 gcaccaaggc cctttgcgtc gccgcggctg ggacccagag cgtgtaagaa gtgcaggcaa 120

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

121 cgcagcgtca cccggatctt cgccgctacc cttgtgggcc ccccggcgac gcttcctgct 180

121 gcgtcgcagt gggcctagaa gcggcgatgg gaacacccgg ggggccgctg cgaaggacga 180

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

181 ccgcccctaa gtcgggaagg ttccttgcgg ttcgcggcgt gccggacgtg acaaacggaa 240

181 ggcggggatt cagcccttcc aaggaacgcc aagcgccgca cggcctgcac tgtttgcctt 240

.......... .......... .......... .......... .......... ..........

.......... SpeI(253) .......... .......... .......... ..........

241 gccgcacgtc tcactagtac cctcgcagac ggacagcgcc agggagcaat ggcagcgcgc 300

241 cggcgtgcag agtgatcatg ggagcgtctg cctgtcgcgg tccctcgtta ccgtcgcgcg 300

.......... .......... .......... ORF1 .......... ..........

.......... .......... .......... .......... .......... ..........

301 cgaccgcgat gggctgtggc caatagcggc tgctcagcag ggcgcgccga gagcagcggc 360

301 gctggcgcta cccgacaccg gttatcgccg acgagtcgtc ccgcgcggct ctcgtcgccg 360

.......... .......... ORF1 .......... ORF1 ..........

.......... .......... .......... .......... .......... ..........

361 cgggaagggg cggtgcggga ggcggggtgt ggggcggtag tgtgggccct gttcctgccc 420

361 gcccttcccc gccacgccct ccgccccaca ccccgccatc acacccggga caaggacggg 420

.......... .......... ORF1 ORF1 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

421 gcgcggtgtt ccgcattctg caagcctccg gagcgcacgt cggcagtcgg ctccctcgtt 480

421 cgcgccacaa ggcgtaagac gttcggaggc ctcgcgtgca gccgtcagcc gagggagcaa 480

.......... .......... ORF1 ORF1 .......... .......... ..........

.......... .......... BamHI(510) .......... .......... ..........

481 gaccgaatca ccgacctctc tccccagggg gatccaccgg agcttaccat gaccgagtac 540

481 ctggcttagt ggctggagag aggggtcccc ctaggtggcc tcgaatggta ctggctcatg 540

.......... .......... ORF1 ORF1 .......... ........ puro(variant)

.......... .......... .......... .......... .......... ..........

541 aagcccacgg tgcgcctcgc cacccgcgac gacgtcccca gggccgtacg caccctcgcc 600

541 ttcgggtgcc acgcggagcg gtgggcgctg ctgcaggggt cccggcatgc gtgggagcgg 600

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

601 gccgcgttcg ccgactaccc cgccacgcgc cacaccgtcg atccggaccg ccacatcgag 660

601 cggcgcaagc ggctgatggg gcggtgcgcg gtgtggcagc taggcctggc ggtgtagctc 660

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

661 cgggtcaccg agctgcaaga actcttcctc acgcgcgtcg ggctcgacat cggcaaggtg 720

661 gcccagtggc tcgacgttct tgagaaggag tgcgcgcagc ccgagctgta gccgttccac 720

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

721 tgggtcgcgg acgacggcgc cgcggtggcg gtctggacca cgccggagag cgtcgaagcg 780

721 acccagcgcc tgctgccgcg gcgccaccgc cagacctggt gcggcctctc gcagcttcgc 780

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

781 ggggcggtgt tcgccgagat cggcccgcgc atggccgagt tgagcggttc ccggctggcc 840

781 ccccgccaca agcggctcta gccgggcgcg taccggctca actcgccaag ggccgaccgg 840

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

841 gcgcagcaac agatggaagg cctcctggcg ccgcaccggc ccaaggagcc cgcgtggttc 900

841 cgcgtcgttg tctaccttcc ggaggaccgc ggcgtggccg ggttcctcgg gcgcaccaag 900

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

901 ctggccaccg tcggcgtctc gcccgaccac cagggcaagg gtctgggcag cgccgtcgtg 960

901 gaccggtggc agccgcagag cgggctggtg gtcccgttcc cagacccgtc gcggcagcac 960

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

961 ctccccggag tggaggcggc cgagcgcgcc ggggtgcccg ccttcctgga gacctccgcg 1020

961 gaggggcctc acctccgccg gctcgcgcgg ccccacgggc ggaaggacct ctggaggcgc 1020

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

1021 ccccgcaacc tccccttcta cgagcggctc ggcttcaccg tcaccgccga cgtcgaggtg 1080

1021 ggggcgttgg aggggaagat gctcgccgag ccgaagtggc agtggcggct gcagctccac 1080

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... .......... ..........

1081 cccgaaggac cgcgcacctg gtgcatgacc cgcaagcccg gtgcctgacg cccgccccac 1140

1081 gggcttcctg gcgcgtggac cacgtactgg gcgttcgggc cacggactgc gggcggggtg 1140

.......... ... ORF1 ORF1 puro(variant) ... .......... ..........

.......... .......... .......... .......... KpnI(1189) ..........

1141 gacccgcagc gcccgaccga aaggagcgca cgaccccatg catcggtacc tttaagacca 1200

1141 ctgggcgtcg cgggctggct ttcctcgcgt gctggggtac gtagccatgg aaattctggt 1200

.......... ORF1 .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

1201 atgacttaca aggcagctgt agatcttagc cactttttaa aagaaaaggg gggactggaa 1260

1201 tactgaatgt tccgtcgaca tctagaatcg gtgaaaaatt ttcttttccc ccctgacctt 1260

.......... .......... .......... .......... cPPT U3PPT ..........

.......... .......... .......... .......... .......... ..........

1261 gggctaattc actcccaacg aagacaagat ctgctttttg cttgtactgg gtctctctgg 1320

1261 cccgattaag tgagggttgc ttctgttcta gacgaaaaac gaacatgacc cagagagacc 1320

U3PPT .......... delta_U3 .......... ......... HIV truncHIV

.......... .......... .......... .......... .......... ..........

1321 ttagaccaga tctgagcctg ggagctctct ggctaactag ggaacccact gcttaagcct 1380

1321 aatctggtct agactcggac cctcgagaga ccgattgatc ccttgggtga cgaattcgga 1380

.......... ......... HIV truncHIV ......... .......... ..........

.......... .......... .......... .......... .......... ..........

1381 caataaagct tgccttgagt gcttcaagta gtgtgtgccc gtctgttgtg tgactctggt 1440

1381 gttatttcga acggaactca cgaagttcat cacacacggg cagacaacac actgagacca 1440

.......... ......... HIV truncHIV ......... .......... ..........

.......... .......... .......... .......... .......... ..........

1441 aactagagat ccctcagacc cttttagtca gtgtggaaaa tctctagcag tagtagttca 1500

1441 ttgatctcta gggagtctgg gaaaatcagt cacacctttt agagatcgtc atcatcaagt 1500

.......... ......... HIV truncHIV ......... .......... ..........

.......... .......... .......... .......... .......... ..........

1501 tgtcatctta ttattcagta tttataactt gcaaagaaat gaatatcaga gagtgagagg 1560

1501 acagtagaat aataagtcat aaatattgaa cgtttcttta cttatagtct ctcactctcc 1560

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

1561 aacttgttta ttgcagctta taatggttac aaataaagca atagcatcac aaatttcaca 1620

1561 ttgaacaaat aacgtcgaat attaccaatg tttatttcgt tatcgtagtg tttaaagtgt 1620

.......... .......... .......... ......... SV40_PA_term .........

.......... .......... .......... .......... .......... ..........

1621 aataaagcat ttttttcact gcattctagt tgtggtttgt ccaaactcat c aatgtatct 1680

1621 ttatttcgta aaaaaagtga cgtaagatca acaccaaaca ggtttgagta gttacataga 1680

.......... ......... SV40_PA_term ......... EBV_r_pri ..........

.......... .......... .......... .......... .......... ..........

1681 tatcatgtct ggctctagct atcccgcccc taactccgcc catcccgccc ctaactccgc 1740

1681 atagtacaga ccgagatcga tagggcgggg attgaggcgg gtagggcggg gattgaggcg 1740

.......... .......... .......... ......... SV40_origin .........

.......... .......... NcoI(1763) .......... .......... ..........

1741 ccagttccgc ccattctccg ccccatggct gactaatttt ttttatttat gcagaggccg 1800

1741 ggtcaaggcg ggtaagaggc ggggtaccga ctgattaaaa aaaataaata cgtctccggc 1800

.......... ......... SV40_origin ......... ........ SV40pro_F_pri

.......... .......... .......... .......... .......... ..........

1801 aggccgcctc ggcctctgag ctattccaga agtagtgagg aggctttttt ggaggcctag 1860

1801 tccggcggag ccggagactc gataaggtct tcatcactcc tccgaaaaaa cctccggatc 1860

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

1861 ggacgtaccc aattcgccct atagtgagtc gtattacgcg cgctcactgg ccgtcgtttt 1920

1861 cctgcatggg ttaagcggga tatcactcag cataatgcgc gcgagtgacc ggcagcaaaa 1920

.......... .......... T7_pro .......... ......... M13_f20_pri

.......... .......... .......... .......... .......... ..........

1921 acaacgtcgt gactgggaaa accctggcgt tacccaactt aatcgccttg cagcacatcc 1980

1921 tgttgcagca ctgacccttt tgggaccgca atgggttgaa ttagcggaac gtcgtgtagg 1980

M_pUC_f_pri ........ lacZ_a .......... .......... ..........

.......... .......... .......... .......... .......... ..........

1981 ccctttcgcc agctggcgta atagcgaaga ggcccgcacc gatcgccctt cccaacagtt 2040

1981 gggaaagcgg tcgaccgcat tatcgcttct ccgggcgtgg ctagcgggaa gggttgtcaa 2040

.......... .......... lacZ_a .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2041 gcgcagcctg aatggcgaat gggacgcgcc ctgtagcggc gcattaagcg cggcgggtgt 2100

2041 cgcgtcggac ttaccgctta ccctgcgcgg gacatcgccg cgtaattcgc gccgcccaca 2100

.......... lacZ_a .......... .......... f1_origin ..........

.......... .......... .......... .......... .......... ..........

2101 ggtggttacg cgcagcgtga ccgctacact tgccagcgcc ctagcgcccg ctcctttcgc 2160

2101 ccaccaatgc gcgtcgcact ggcgatgtga acggtcgcgg gatcgcgggc gaggaaagcg 2160

.......... .......... f1_origin .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2161 tttcttccct tcctttctcg ccacgttcgc cggctttccc cgtcaagctc taaatcgggg 2220

2161 aaagaaggga aggaaagagc ggtgcaagcg gccgaaaggg gcagttcgag atttagcccc 2220

.......... .......... f1_origin .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2221 gctcccttta gggttccgat ttagtgcttt acggcacctc gaccccaaaa aacttgatta 2280

2221 cgagggaaat cccaaggcta aatcacgaaa tgccgtggag ctggggtttt ttgaactaat 2280

.......... .......... f1_origin .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2281 gggtgatggt tcacgtagtg ggccatcgcc ctgatagacg gtttttcgcc ctttgacgtt 2340

2281 cccactacca agtgcatcac ccggtagcgg gactatctgc caaaaagcgg gaaactgcaa 2340

.......... .......... f1_origin .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2341 ggagtccacg ttctttaata gtggactctt gttccaaact ggaacaacac tcaaccctat 2400

2341 cctcaggtgc aagaaattat cacctgagaa caaggtttga ccttgttgtg agttgggata 2400

.......... .......... f1_origin .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2401 ctcggtctat tcttttgatt tataagggat tttgccgatt tcggcctatt ggttaaaaaa 2460

2401 gagccagata agaaaactaa atattcccta aaacggctaa agccggataa ccaatttttt 2460

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2461 tgagctgatt taacaaaaat ttaacgcgaa ttttaacaaa atattaacgc ttacaattta 2520

2461 actcgactaa attgttttta aattgcgctt aaaattgttt tataattgcg aatgttaaat 2520

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2521 ggtggcactt ttcggggaaa tgtgcgcgga acccctattt gtttattttt ctaaatacat 2580

2521 ccaccgtgaa aagccccttt acacgcgcct tggggataaa caaataaaaa gatttatgta 2580

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2581 tcaaatatgt atccgctcat gagacaataa ccctgataaa tgcttcaata atattgaaaa 2640

2581 agtttataca taggcgagta ctctgttatt gggactattt acgaagttat tataactttt 2640

.......... AmpR_pro .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

2641 aggaagagta tgagtattca acatttccgt gtcgccctta ttcccttttt tgcggcattt 2700

2641 tccttctcat actcataagt tgtaaaggca cagcgggaat aagggaaaaa acgccgtaaa 2700

.......... .......... ....... ORF1 Ampicillin ....... ..........

.......... .......... .......... .......... .......... ..........

2701 tgccttcctg tttttgctca cccagaaacg ctggtgaaag taaaagatgc tgaagatcag 2760

2701 acggaaggac aaaaacgagt gggtctttgc gaccactttc attttctacg acttctagtc 2760

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

2761 ttgggtgcac gagtgggtta catcgaactg gatctcaaca gcggtaagat ccttgagagt 2820

2761 aacccacgtg ctcacccaat gtagcttgac ctagagttgt cgccattcta ggaactctca 2820

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

2821 tttcgccccg aagaacgttt tccaatgatg agcactttta aagttctgct atgtggcgcg 2880

2821 aaagcggggc ttcttgcaaa aggttactac tcgtgaaaat ttcaagacga tacaccgcgc 2880

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

2881 gtattatccc gtattgacgc cgggcaagag caactcggtc gccgcataca ctattctcag 2940

2881 cataataggg cataactgcg gcccgttctc gttgagccag cggcgtatgt gataagagtc 2940

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

2941 aatgacttgg ttgagtactc accagtcaca gaaaagcatc ttacggatgg catgacagta 3000

2941 ttactgaacc aactcatgag tggtcagtgt cttttcgtag aatgcctacc gtactgtcat 3000

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3001 agagaattat gcagtgctgc cataaccatg agtgataaca ctgcggccaa cttacttctg 3060

3001 tctcttaata cgtcacgacg gtattggtac tcactattgt gacgccggtt gaatgaagac 3060

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3061 acaacgatcg gaggaccgaa ggagctaacc gcttttttgc acaacatggg ggatcatgta 3120

3061 tgttgctagc ctcctggctt cctcgattgg cgaaaaaacg tgttgtaccc cctagtacat 3120

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3121 actcgccttg atcgttggga accggagctg aatgaagcca taccaaacga cgagcgtgac 3180

3121 tgagcggaac tagcaaccct tggcctcgac ttacttcggt atggtttgct gctcgcactg 3180

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3181 accacgatgc ctgtagcaat ggcaacaacg ttgcgcaaac tattaactgg cgaactactt 3240

3181 tggtgctacg gacatcgtta ccgttgttgc aacgcgtttg ataattgacc gcttgatgaa 3240

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3241 actctagctt cccggcaaca attaatagac tggatggagg cggataaagt tgcaggacca 3300

3241 tgagatcgaa gggccgttgt taattatctg acctacctcc gcctatttca acgtcctggt 3300

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3301 cttctgcgct cggcccttcc ggctggctgg tttattgctg ataaatctgg agccggtgag 3360

3301 gaagacgcga gccgggaagg ccgaccgacc aaataacgac tatttagacc tcggccactc 3360

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3361 cgtgggtctc gcggtatcat tgcagcactg gggccagatg gtaagccctc ccgtatcgta 3420

3361 gcacccagag cgccatagta acgtcgtgac cccggtctac cattcgggag ggcatagcat 3420

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3421 gttatctaca cgacggggag tcaggcaact atggatgaac gaaatagaca gatcgctgag 3480

3421 caatagatgt gctgcccctc agtccgttga tacctacttg ctttatctgt ctagcgactc 3480

.......... ....... ORF1 Ampicillin ....... .......... ..........

.......... .......... .......... .......... .......... ..........

3481 ataggtgcct cactgattaa gcattggtaa ctgtcagacc aagtttactc atatatactt 3540

3481 tatccacgga gtgactaatt cgtaaccatt gacagtctgg ttcaaatgag tatatatgaa 3540

....... ORF1 Ampicillin ....... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

3541 tagattgatt taaaacttca tttttaattt aaaaggatct aggtgaagat cctttttgat 3600

3541 atctaactaa attttgaagt aaaaattaaa ttttcctaga tccacttcta ggaaaaacta 3600

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

3601 aatctcatga ccaaaatccc ttaacgtgag ttttcgttcc actgagcgtc agaccccgta 3660

3601 ttagagtact ggttttaggg aattgcactc aaaagcaagg tgactcgcag tctggggcat 3660

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

3661 gaaaagatca aaggatcttc ttgagatcct ttttttctgc gcgtaatctg ctgcttgcaa 3720

3661 cttttctagt ttcctagaag aactctagga aaaaaagacg cgcattagac gacgaacgtt 3720

.......... .......... ........ pBR322_origin ........ ..........

.......... .......... .......... .......... .......... ..........

3721 acaaaaaaac caccgctacc agcggtggtt tgtttgccgg atcaagagct accaactctt 3780

3721 tgtttttttg gtggcgatgg tcgccaccaa acaaacggcc tagttctcga tggttgagaa 3780

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

3781 tttccgaagg taactggctt cagcagagcg cagataccaa atactgttct tctagtgtag 3840

3781 aaaggcttcc attgaccgaa gtcgtctcgc gtctatggtt tatgacaaga agatcacatc 3840

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

3841 ccgtagttag gccaccactt caagaactct gtagcaccgc ctacatacct cgctctgcta 3900

3841 ggcatcaatc cggtggtgaa gttcttgaga catcgtggcg gatgtatgga gcgagacgat 3900

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

3901 atcctgttac cagtggctgc tgccagtggc gataagtcgt gtcttaccgg gttggactca 3960

3901 taggacaatg gtcaccgacg acggtcaccg ctattcagca cagaatggcc caacctgagt 3960

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

3961 agacgatagt taccggataa ggcgcagcgg tcgggctgaa cggggggttc gtgcacacag 4020

3961 tctgctatca atggcctatt ccgcgtcgcc agcccgactt gccccccaag cacgtgtgtc 4020

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

4021 cccagcttgg agcgaacgac ctacaccgaa ctgagatacc tacagcgtga gctatgagaa 4080

4021 gggtcgaacc tcgcttgctg gatgtggctt gactctatgg atgtcgcact cgatactctt 4080

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

4081 agcgccacgc ttcccgaagg gagaaaggcg gacaggtatc cggtaagcgg cagggtcgga 4140

4081 tcgcggtgcg aagggcttcc ctctttccgc ctgtccatag gccattcgcc gtcccagcct 4140

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

4141 acaggagagc gcacgaggga gcttccaggg ggaaacgcct ggtatcttta tagtcctgtc 4200

4141 tgtcctctcg cgtgctccct cgaaggtccc cctttgcgga ccatagaaat atcaggacag 4200

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

4201 gggtttcgcc acctctgact tgagcgtcga tttttgtgat gctcgtcagg ggggcggagc 4260

4201 cccaaagcgg tggagactga actcgcagct aaaaacacta cgagcagtcc ccccgcctcg 4260

.......... ........ pBR322_origin ........ .......... ..........

.......... .......... .......... .......... .......... ..........

4261 ctatggaaaa acgccagcaa cgcggccttt ttacggttcc tggccttttg ctggcctttt 4320

4261 gatacctttt tgcggtcgtt gcgccggaaa aatgccaagg accggaaaac gaccggaaaa 4320

........ pBR322_origin ........ .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4321 gctcacatgt tctttcctgc gttatcccct gattctgtgg ataaccgtat taccgccttt 4380

4321 cgagtgtaca agaaaggacg caatagggga ctaagacacc tattggcata atggcggaaa 4380

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4381 gagtgagctg ataccgctcg ccgcagccga acgaccgagc gcagcgagtc agtgagcgag 4440

4381 ctcactcgac tatggcgagc ggcgtcggct tgctggctcg cgtcgctcag tcactcgctc 4440

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4441 gaagcggaag agcgcccaat acgcaaaccg cctctccccg cgcgttggcc gattcattaa 4500

4441 cttcgccttc tcgcgggtta tgcgtttggc ggagaggggc gcgcaaccgg ctaagtaatt 4500

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4501 tgcagctggc acgacaggtt tcccgactgg aaagcgggca gtgagcgcaa cgcaattaat 4560

4501 acgtcgaccg tgctgtccaa agggctgacc tttcgcccgt cactcgcgtt gcgttaatta 4560

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4561 gtgagttagc tcactcatta ggcaccccag gctttacact ttatgcttcc ggctcgtatg 4620

4561 cactcaatcg agtgagtaat ccgtggggtc cgaaatgtga aatacgaagg ccgagcatac 4620

.......... .......... .......... .......... .......... lac_pro

.......... .......... .......... .......... .......... ..........

4621 ttgtgtggaa ttgtgagcgg ataacaattt cacacaggaa acagctatga ccatgattac 4680

4621 aacacacctt aacactcgcc tattgttaaa gtgtgtcctt tgtcgatact ggtactaatg 4680

.......... lac_pro ........ M13_pUC_r_pri M13_r_pri ........

.......... .......... .......... .......... .......... ..........

4681 gccaagcgcg caattaaccc tcactaaagg gaacaaaagc tggagctgca agcttaatgt 4740

4681 cggttcgcgc gttaattggg agtgatttcc cttgttttcg acctcgacgt tcgaattaca 4740

.......... .......... T3_pro .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4741 agtcttatgc aatactcttg tagtcttgca acatggtaac gatgagttag caacatgcct 4800

4741 tcagaatacg ttatgagaac atcagaacgt tgtaccattg ctactcaatc gttgtacgga 4800

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4801 tacaaggaga gaaaaagcac cgtgcatgcc gattggtgga agtaaggtgg tacgatcgtg 4860

4801 atgttcctct ctttttcgtg gcacgtacgg ctaaccacct tcattccacc atgctagcac 4860

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4861 ccttattagg aaggcaacag acgggtctga catggattgg acgaaccact gaattgccgc 4920

4861 ggaataatcc ttccgttgtc tgcccagact gtacctaacc tgcttggtga cttaacggcg 4920

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

4921 attgcagaga tattgtattt aagtgcctag ctcgatacat aaacgggtct ctctggttag 4980

4921 taacgtctct ataacataaa ttcacggatc gagctatgta tttgcccaga gagaccaatc 4980

.......... .......... .......... .......... ......... HIV truncHIV

.......... .......... .......... .......... .......... ..........

4981 accagatctg agcctgggag ctctctggct aactagggaa cccactgctt aagcctcaat 5040

4981 tggtctagac tcggaccctc gagagaccga ttgatccctt gggtgacgaa ttcggagtta 5040

.......... ......... HIV truncHIV ......... .......... ..........

.......... .......... .......... .......... .......... ..........

5041 aaagcttgcc ttgagtgctt caagtagtgt gtgcccgtct gttgtgtgac tctggtaact 5100

5041 tttcgaacgg aactcacgaa gttcatcaca cacgggcaga caacacactg agaccattga 5100

.......... ......... HIV truncHIV ......... .......... ..........

.......... .......... .......... .......... .......... ..........

5101 agagatccct cagacccttt tagtcagtgt ggaaaatctc tagcagtggc gcccgaacag 5160

5101 tctctaggga gtctgggaaa atcagtcaca ccttttagag atcgtcaccg cgggcttgtc 5160

.......... ......... HIV truncHIV ......... .......... ..........

.......... .......... .......... .......... .......... ..........

5161 ggacttgaaa gcgaaaggga aaccagagga gctctctcga cgcaggactc ggcttgctga 5220

5161 cctgaacttt cgctttccct ttggtctcct cgagagagct gcgtcctgag ccgaacgact 5220

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5221 agcgcgcacg gcaagaggcg aggggcggcg actggtgagt acgccaaaaa ttttgactag 5280

5221 tcgcgcgtgc cgttctccgc tccccgccgc tgaccactca tgcggttttt aaaactgatc 5280

.......... .......... .......... ........ HIV-1_psi_pack ........

.......... .......... .......... .......... .......... ..........

5281 cggaggctag aaggagagag atgggtgcga gagcgtcagt attaagcggg ggagaattag 5340

5281 gcctccgatc ttcctctctc tacccacgct ctcgcagtca taattcgccc cctcttaatc 5340

HIV-1_psi_pack ...... .......... .......... .......... ..........

NruI(5344) .......... .......... .......... .......... ..........

5341 atcgcgatgg gaaaaaattc ggttaaggcc agggggaaag aaaaaatata aattaaaaca 5400

5341 tagcgctacc cttttttaag ccaattccgg tccccctttc ttttttatat ttaattttgt 5400

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5401 tatagtatgg gcaagcaggg agctagaacg attcgcagtt aatcctggcc tgttagaaac 5460

5401 atatcatacc cgttcgtccc tcgatcttgc taagcgtcaa ttaggaccgg acaatctttg 5460

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5461 atcagaaggc tgtagacaaa tactgggaca gctacaacca tcccttcaga caggatcaga 5520

5461 tagtcttccg acatctgttt atgaccctgt cgatgttggt agggaagtct gtcctagtct 5520

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5521 agaacttaga tcattatata atacagtagc aaccctctat tgtgtgcatc aaaggataga 5580

5521 tcttgaatct agtaatatat tatgtcatcg ttgggagata acacacgtag tttcctatct 5580

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5581 gataaaagac accaaggaag ctttagacaa gatagaggaa gagcaaaaca aaagtaagac 5640

5581 ctattttctg tggttccttc gaaatctgtt ctatctcctt ctcgttttgt tttcattctg 5640

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5641 caccgcacag caagcggccg ctgatcttca gacctggagg aggagatatg agggacaatt 5700

5641 gtggcgtgtc gttcgccggc gactagaagt ctggacctcc tcctctatac tccctgttaa 5700

.......... .......... .......... .......... .......... ORF3

.......... .......... .......... .......... .......... ..........

5701 ggagaagtga attatataaa tataaagtag taaaaattga accattagga gtagcaccca 5760

5701 cctcttcact taatatattt atatttcatc atttttaact tggtaatcct catcgtgggt 5760

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5761 ccaaggcaaa gagaagagtg gtgcagagag aaaaaagagc agtgggaata ggagctttgt 5820

5761 ggttccgttt ctcttctcac cacgtctctc ttttttctcg tcacccttat cctcgaaaca 5820

.......... .......... ORF3 .......... .......... RRE

.......... .......... .......... .......... .......... ..........

5821 tccttgggtt cttgggagca gcaggaagca ctatgggcgc agcgtcaatg acgctgacgg 5880

5821 aggaacccaa gaaccctcgt cgtccttcgt gatacccgcg tcgcagttac tgcgactgcc 5880

.......... .......... ORF3 RRE .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5881 tacaggccag acaattattg tctggtatag tgcagcagca gaacaatttg ctgagggcta 5940

5881 atgtccggtc tgttaataac agaccatatc acgtcgtcgt cttgttaaac gactcccgat 5940

.......... .......... ORF3 RRE .......... .......... ..........

.......... .......... .......... .......... .......... ..........

5941 ttgaggcgca acagcatctg ttgcaactca cagtctgggg catcaagcag ctccaggcaa 6000

5941 aactccgcgt tgtcgtagac aacgttgagt gtcagacccc gtagttcgtc gaggtccgtt 6000

.......... .......... ORF3 RRE .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6001 gaatcctggc tgtggaaaga tacctaaagg atcaacagct cctggggatt tggggttgct 6060

6001 cttaggaccg acacctttct atggatttcc tagttgtcga ggacccctaa accccaacga 6060

.......... .......... ORF3 RRE .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6061 ctggaaaact catttgcacc actgctgtgc cttggaatgc tagttggagt aataaatctc 6120

6061 gaccttttga gtaaacgtgg tgacgacacg gaaccttacg atcaacctca ttatttagag 6120

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6121 tggaacagat ttggaatcac acgacctgga tggagtggga cagagaaatt aacaattaca 6180

6121 accttgtcta aaccttagtg tgctggacct acctcaccct gtctctttaa ttgttaatgt 6180

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6181 caagcttaat acactcctta attgaagaat cgcaaaacca gcaagaaaag aatgaacaag 6240

6181 gttcgaatta tgtgaggaat taacttctta gcgttttggt cgttcttttc ttacttgttc 6240

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6241 aattattgga attagataaa tgggcaagtt tgtggaattg gtttaacata acaaattggc 6300

6241 ttaataacct taatctattt acccgttcaa acaccttaac caaattgtat tgtttaaccg 6300

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6301 tgtggtatat aaaattattc ataatgatag taggaggctt ggtaggttta agaatagttt 6360

6301 acaccatata ttttaataag tattactatc atcctccgaa ccatccaaat tcttatcaaa 6360

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6361 ttgctgtact ttctatagtg aatagagtta ggcagggata ttcaccatta tcgtttcaga 6420

6361 aacgacatga aagatatcac ttatctcaat ccgtccctat aagtggtaat agcaaagtct 6420

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6421 cccacctccc aaccccgagg ggacccgaca ggcccgaagg aatagaagaa gaaggtggag 6480

6421 gggtggaggg ttggggctcc cctgggctgt ccgggcttcc ttatcttctt cttccacctc 6480

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... ClaI(6530) ..........

6481 agagagacag agacagatcc attcgattag tgaacggatc tcgacggtat cgatcacgag 6540

6481 tctctctgtc tctgtctagg taagctaatc acttgcctag agctgccata gctagtgctc 6540

.......... .......... ORF3 .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6541 actagcctcg agcggccgcc cccttcaccg agggcctatt tcccatgatt ccttcatatt 6600

6541 tgatcggagc tcgccggcgg gggaagtggc tcccggataa agggtactaa ggaagtataa 6600

.......... .......... .......... .......... hU6_pro ..........

.......... .......... .......... .......... .......... ..........

6601 tgcatatacg atacaaggct gttagagaga taattggaat taatttgact gtaaacacaa 6660

6601 acgtatatgc tatgttccga caatctctct attaacctta attaaactga catttgtgtt 6660

.......... .......... hU6_pro .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6661 agatattagt acaaaatacg tgacgtagaa agtaataatt tcttgggtag tttgcagttt 6720

6661 tctataatca tgttttatgc actgcatctt tcattattaa agaacccatc aaacgtcaaa 6720

.......... .......... hU6_pro .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6721 taaaattatg ttttaaaatg gactatcata tgcttaccgt aacttgaaag tatttcgatt 6780

6721 attttaatac aaaattttac ctgatagtat acgaatggca ttgaactttc ataaagctaa 6780

.......... ...... hU6_pro LKO1_5_pri ...... .......... ..........

.......... .......... ......... AgeI(6816) EcoRI(6822) .........

6781 tcttggcttt atatatcttg tggaaaggac gaaacaccgg tgaattctcg acctcgagac 6840

6781 agaaccgaaa tatatagaac acctttcctg ctttgtggcc acttaagagc tggagctctg 6840

.......... hU6_pro .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6841 aaatggcagt attcatccac aattttaaaa gaaaaggggg gattgggggg tacagtgcag 6900

6841 tttaccgtca taagtaggtg ttaaaatttt cttttccccc ctaacccccc atgtcacgtc 6900

.......... .......... .......... cPPT .......... ..........

.......... .......... .......... .......... .......... ..........

6901 gggaaagaat agtagacata atagcaacag acatacaaac taaagaatta caaaaacaaa 6960

6901 ccctttctta tcatctgtat tatcgttgtc tgtatgtttg atttcttaat gtttttgttt 6960

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

6961 ttacaaaaat tcaaaatttt cgggtttatt acagggacag cagagatcca ctttggccgc 7020

6961 aatgttttta agttttaaaa gcccaaataa tgtccctgtc gtctctaggt gaaaccggcg 7020

.......... .......... .......... .......... .......... ..........

.......... .......... .......... .......... .......... ..........

7021 ggctcgaggg gg........ .......... .......... .......... .......... 7032

7021 ccgagctccc cc........ .......... .......... .......... .......... 7032

.......... .......... .......... .......... .......... ..........