Addgene pLJM1-EGFP-BarcodeV2 - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pLJM1-EGFP-BarcodeV2


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SnaBI (106) NdeI (0) hU6-F (8159 .. 8179) BspDI * - ClaI * (8119) KflI - PpuMI (8030) gp41 peptide BbvCI (7520) MfeI (7285) EcoNI (7266) NruI * (6933) HIV-1 Ψ 5' LTR (truncated) RSV promoter SphI (6417) T3 promoter T3 (6279 .. 6299) M13 rev M13 Reverse (6244 .. 6260) lac operator M13/pUC Reverse (6225 .. 6247) lac promoter CAP binding site L4440 (6012 .. 6029) AflIII - PciI (5914) pBR322ori-F (5759 .. 5778) ScaI (4545) Amp-R (4457 .. 4476) AmpR promoter F1ori-F (3950 .. 3971) f1 ori NaeI (3780) CMV promoter CMV-F (285 .. 305) NheI (357) BmtI (361) AfeI (362) AgeI (366) EGFP-N (424 .. 445) EXFP-R (685 .. 704) EGFP-C (1032 .. 1053) BsrGI (1088) EcoRI (1379) cPPT/CTS XcmI (1614) hPGK promoter SpeI (1842) BlpI (1922) AscI (1931) hPGK-F (2015 .. 2033) HincII (2069) BamHI (2099) Puro-R (2118 .. 2137) BsiWI (2174) RsrII (2234) BstEII (2252) Puro-F (2614 .. 2634) CsiI - SexAI * (2685) NsiI (2771) Acc65I (2774) KpnI (2778) BbsI (2876) 3' LTR (ΔU3) SV40pA-R (3187 .. 3206) SV40 poly(A) signal EBV-rev (3241 .. 3260) SV40 ori SfiI (3398) AvrII (3445) T7 promoter T7 (3466 .. 3485) M13 fwd M13 Forward (3495 .. 3512) M13/pUC Forward (3504 .. 3526) F1ori-R (3740 .. 3759) NgoMIV (3778) pLJM1-EGFP-BarcodeV2 8337 bp

Sequence View

NdeI 60 t a t g c c a a g t a c g c c c c c t a t t g a c g t c a a t g a c g g t a a a t g g c c c g c c t g g c a t t a t g c a t a c g g t t c a t g c g g g g g a t a a c t g c a g t t a c t g c c a t t t a c c g g g c g g a c c g t a a t a c g

SnaBI 120 c c a g t a c a t g a c c t t a t g g g a c t t t c c t a c t t g g c a g t a c a t c t a c g t a t t a g t c a t c g c g g t c a t g t a c t g g a a t a c c c t g a a a g g a t g a a c c g t c a t g t a g a t g c a t a a t c a g t a g c g

180 CMV promoter t a t t a c c a t g g t g a t g c g g t t t t g g c a g t a c a t c a a t g g g c g t g g a t a g c g g t t t g a c t c a t a a t g g t a c c a c t a c g c c a a a a c c g t c a t g t a g t t a c c c g c a c c t a t c g c c a a a c t g a g

240 CMV promoter a c g g g g a t t t c c a a g t c t c c a c c c c a t t g a c g t c a a t g g g a g t t t g t t t t g g c a c c a a a a t g c c c c t a a a g g t t c a g a g g t g g g g t a a c t g c a g t t a c c c t c a a a c a a a a c c g t g g t t t t

300 CMV promoter C G C A A A T G G G C G G T A G CMV-F t c a a c g g g a c t t t c c a a a a t g t c g t a a c a a c t c c g c c c c a t t g a c g c a a a t g g g c g g t a g a g t t g c c c t g a a a g g t t t t a c a g c a t t g t t g a g g c g g g g t a a c t g c g t t t a c c c g c c a t c

NheI 360 CMV promoter G C G T G CMV-F g c g t g t a c g g t g g g a g g t c t a t a t a a g c a g a g c t g g t t t a g t g a a c c g t c a g a t c c g c t a c g c a c a t g c c a c c c t c c a g a t a t a t t c g t c t c g a c c a a a t c a c t t g g c a g t c t a g g c g a t

AgeIBmtIAfeI 420 1 M 1a V 5 10 SKGEELFTGVVP EGFP 1 M 1a V 5 10 SKGEELFTGVVP EGFP Kozak sequence MVSKGEELFTGVVP *RDGGHHALALLQEGPHHG g c g c t a c c g g t c g c c a c c a t g g t g a g c a a g g g c g a g g a g c t g t t c a c c g g g g t g g t g c c c c g c g a t g g c c a g c g g t g g t a c c a c t c g t t c c c g c t c c t c g a c a a g t g g c c c c a c c a c g g g

480 15 20 25 30 ILVELDGDVNGHKFSVSGEG EGFP 15 20 25 30 ILVELDGDVNGHKFSVSGEG EGFP G A C C A G C T C G A C C T G C C G C T G C EGFP-N ILVELDGDVNGHKFSVSGEG DQDLQVAVYVAVLEAHGALA a t c c t g g t c g a g c t g g a c g g c g a c g t a a a c g g c c a c a a g t t c a g c g t g t c c g g c g a g g g c t a g g a c c a g c t c g a c c t g c c g c t g c a t t t g c c g g t g t t c a a g t c g c a c a g g c c g c t c c c g

540 35 40 45 50 EGDATYGKLTLKFICTTGKL EGFP 35 40 45 50 EGDATYGKLTLKFICTTGKL EGFP EGDATYGKLTLKFICTTGKL LAIGGVALQGQLEDAGGALQ g a g g g c g a t g c c a c c t a c g g c a a g c t g a c c c t g a a g t t c a t c t g c a c c a c c g g c a a g c t g c t c c c g c t a c g g t g g a t g c c g t t c g a c t g g g a c t t c a a g t a g a c g t g g t g g c c g t t c g a c

600 55 60 65 70 PVPWPTLVTTLTYGVQCFSR EGFP 55 60 65 70 PVPWPTLVTTLTYGVQCFSR EGFP PVPWPTLVTTLTYGVQCFSR GHGPGGEHGGQGVAHLAEAA c c c g t g c c c t g g c c c a c c c t c g t g a c c a c c c t g a c c t a c g g c g t g c a g t g c t t c a g c c g c g g g c a c g g g a c c g g g t g g g a g c a c t g g t g g g a c t g g a t g c c g c a c g t c a c g a a g t c g g c g

660 75 80 85 90 YPDHMKQHDFFKSAMPEGYV EGFP 75 80 85 90 YPDHMKQHDFFKSAMPEGYV EGFP YPDHMKQHDFFKSAMPEGYV VGVVHLLVVEELGGHGFAVD t a c c c c g a c c a c a t g a a g c a g c a c g a c t t c t t c a a g t c c g c c a t g c c c g a a g g c t a c g t c a t g g g g c t g g t g t a c t t c g t c g t g c t g a a g a a g t t c a g g c g g t a c g g g c t t c c g a t g c a g

720 95 100 105 110 QERTIFFKDDGNYKTRAEVK EGFP 95 100 105 110 QERTIFFKDDGNYKTRAEVK EGFP C T G C T G C C G T T G A T G T T C T G EXFP-R QERTIFFKDDGNYKTRAEVK LLAGDEELVVAVVLGAGLHL c a g g a g c g c a c c a t c t t c t t c a a g g a c g a c g g c a a c t a c a a g a c c c g c g c c g a g g t g a a g g t c c t c g c g t g g t a g a a g a a g t t c c t g c t g c c g t t g a t g t t c t g g g c g c g g c t c c a c t t c

780 115 120 125 130 FEGDTLVNRIELKGIDFKED EGFP 115 120 125 130 FEGDTLVNRIELKGIDFKED EGFP FEGDTLVNRIELKGIDFKED ELAVGQHVADLQLADVELLV t t c g a g g g c g a c a c c c t g g t g a a c c g c a t c g a g c t g a a g g g c a t c g a c t t c a a g g a g g a c a a g c t c c c g c t g t g g g a c c a c t t g g c g t a g c t c g a c t t c c c g t a g c t g a a g t t c c t c c t g

840 135 140 145 150 GNILGHKLEYNYNSHNVYIM EGFP 135 140 145 150 GNILGHKLEYNYNSHNVYIM EGFP GNILGHKLEYNYNSHNVYIM AVDQPVLQLVVVVAVVDIDH g g c a a c a t c c t g g g g c a c a a g c t g g a g t a c a a c t a c a a c a g c c a c a a c g t c t a t a t c a t g c c g t t g t a g g a c c c c g t g t t c g a c c t c a t g t t g a t g t t g t c g g t g t t g c a g a t a t a g t a c

900 155 160 165 170 ADKQKNGIKVNFKIRHNIED EGFP 155 160 165 170 ADKQKNGIKVNFKIRHNIED EGFP ADKQKNGIKVNFKIRHNIED GVLLLVADLHVELDAVVDLV g c c g a c a a g c a g a a g a a c g g c a t c a a g g t g a a c t t c a a g a t c c g c c a c a a c a t c g a g g a c c g g c t g t t c g t c t t c t t g c c g t a g t t c c a c t t g a a g t t c t a g g c g g t g t t g t a g c t c c t g

960 175 180 185 190 GSVQLADHYQQNTPIGDGPV EGFP 175 180 185 190 GSVQLADHYQQNTPIGDGPV EGFP GSVQLADHYQQNTPIGDGPV AAHLEGVVVLLVGGDAVAGH g g c a g c g t g c a g c t c g c c g a c c a c t a c c a g c a g a a c a c c c c c a t c g g c g a c g g c c c c g t g c c g t c g c a c g t c g a g c g g c t g g t g a t g g t c g t c t t g t g g g g g t a g c c g c t g c c g g g g c a c

1020 195 200 205 210 LLPDNHYLSTQSALSKDPNE EGFP 195 200 205 210 LLPDNHYLSTQSALSKDPNE EGFP LLPDNHYLSTQSALSKDPNE QQGVVVVQAGLGGQAFVGVL c t g c t g c c c g a c a a c c a c t a c c t g a g c a c c c a g t c c g c c c t g a g c a a a g a c c c c a a c g a g g a c g a c g g g c t g t t g g t g a t g g a c t c g t g g g t c a g g c g g g a c t c g t t t c t g g g g t t g c t c

1080 215 220 225 230 KRDHMVLLEFVTAAGITLGM EGFP 215 220 225 230 KRDHMVLLEFVTAAGITLGM EGFP C A T G G T C C T G C T G G A G T T C G T G EGFP-C KRDHMVLLEFVTAAGITLGM LAIVHDQQLEHGGGPDSEAH a a g c g c g a t c a c a t g g t c c t g c t g g a g t t c g t g a c c g c c g c c g g g a t c a c t c t c g g c a t g t t c g c g c t a g t g t a c c a g g a c g a c c t c a a g c a c t g g c g g c g g c c c t a g t g a g a g c c g t a c

BsrGI 1140 235 DELYK (in frame with EGFP) SGLRSRAQASSTVAG EGFP 235 DELYK (in frame with EGFP) SGLRSRAQASSTVAG EGFP DELYKSGLRSRAQASSTVAG VLQVLGSESRSSLSRASHSP g a c g a g c t g t a c a a g t c c g g a c t c a g a t c t c g a g c t c a a g c t t c g a g c a c t g t g g c t g g g c t g c t c g a c a t g t t c a g g c c t g a g t c t a g a g c t c g a g t t c g a a g c t c g t g a c a c c g a c c c

1200 (in frame with EGFP) GGGNRLCGQRWRNRPLRLEE (in frame with EGFP) GGGNRLCGQRWRNRPLRLEE GGGNRLCGQRWRNRPLRLEE STSIPQAALPPPIPWQSQLL g g a g g t g g a a a t c g g c t g t g c g g c c a g a g g t g g a g g a a t a g g c c a c t g c g a c t g g a g g a g c c t c c a c c t t t a g c c g a c a c g c c g g t c t c c a c c t c c t t a t c c g g t g a c g c t g a c c t c c t c

1260 (in frame with EGFP) VDTGTAAWG* (in frame with EGFP) VDTGTAAWG* VDTGTAAWG* HISASCGPPSTSAVAAPPPL g t g g a t a c t g g c a c t g c a g c c t g g g g g t g a g g t a g a t g c c a c a g c g g c c g g a g g t g g c a g c a c c t a t g a c c g t g a c g t c g g a c c c c c a c t c c a t c t a c g g t g t c g c c g g c c t c c a c c g t c

1320 ELCPPQFHHHFASPCSISSK t t c t a g g c a c g g a g g c t g g a a g t g g t g g t g a a a g g c a c t g g g g c a g g a g a t g g a g g a c t t a a g a t c c g t g c c t c c g a c c t t c a c c a c c a c t t t c c g t g a c c c c g t c c t c t a c c t c c t g a a

EcoRI 1380 TVAAASPPFQSKPQLYLSIS t g t c a c t g c g g c t g c a g a t g g t g g g a a t t g g c t c t t c g g c t g g a g g t a g a g g c t a a t c g a a c a g t g a c g c c g a c g t c t a c c a c c c t t a a c c g a g a a g c c g a c c t c c a t c t c c g a t t a g c t

1440 cPPT/CTS NEVELCIATNMWLKLLFPPI a t t c t c g a c c t c g a g a c a a a t g g c a g t a t t c a t c c a c a a t t t t a a a a g a a a a g g g g g g a t t a a g a g c t g g a g c t c t g t t t a c c g t c a t a a g t a g g t g t t a a a a t t t t c t t t t c c c c c c t a

1500 cPPT/CTS PPYLAPSLITSMIAVSM t g g g g g g t a c a g t g c a g g g g a a a g a a t a g t a g a c a t a a t a g c a a c a g a c a t a c a a a c t a a a c c c c c c a t g t c a c g t c c c c t t t c t t a t c a t c t g t a t t a t c g t t g t c t g t a t g t t t g a t t

1560 cPPT/CTS *LFLNCFNLIKPNIVPVAS a g a a t t a c a a a a a c a a a t t a c a a a a a t t c a a a a t t t t c g g g t t t a t t a c a g g g a c a g c a g t c t t a a t g t t t t t g t t t a a t g t t t t t a a g t t t t a a a a g c c c a a a t a a t g t c c c t g t c g t c

XcmI 1620 hPGK promoter IWKPRPELPNPNRRKWPLGP a g a t c c a c t t t g g c c g c g g c t c g a g g g g g t t g g g g t t g c g c c t t t t c c a a g g c a g c c c t g t c t a g g t g a a a c c g g c g c c g a g c t c c c c c a a c c c c a a c g c g g a a a a g g t t c c g t c g g g a c

1680 hPGK promoter NACPRPQEPRPEPFRLPASG g g t t t g c g c a g g g a c g c g g c t g c t c t g g g c g t g g t t c c g g g a a a c g c a g c g g c g c c g a c c c c a a a c g c g t c c c t g c g c c g a c g a g a c c c g c a c c a a g g c c c t t t g c g t c g c c g c g g c t g g

1740 hPGK promoter PDRVNKVDTRLTVRIKAAVR c t g g g t c t c g c a c a t t c t t c a c g t c c g t t c g c a g c g t c a c c c g g a t c t t c g c c g c t a c c c g a c c c a g a g c g t g t a a g a a g t g c a g g c a a g c g t c g c a g t g g g c c t a g a a g c g g c g a t g g g

1800 hPGK promoter TPGGAVSGAGGRLRSPEKRN t t g t g g g c c c c c c g g c g a c g c t t c c t g c t c c g c c c c t a a g t c g g g a a g g t t c c t t g c g g t a a c a c c c g g g g g g c c g c t g c g a a g g a c g a g g c g g g g a t t c a g c c c t t c c a a g g a a c g c c a

SpeI 1860 hPGK promoter AAHRVHCVSAARRVLVRASP t c g c g g c g t g c c g g a c g t g a c a a a c g g a a g c c g c a c g t c t c a c t a g t a c c c t c g c a g a c g a g c g c c g c a c g g c c t g c a c t g t t t g c c t t c g g c g t g c a g a g t g a t c a t g g g a g c g t c t g c

1920 hPGK promoter MAARRPRWAVANSG CRWPAIAARRGRHATALLPQ g a c a g c g c c a g g g a g c a a t g g c a g c g c g c c g a c c g c g a t g g g c t g t g g c c a a t a g c g g c t c t g t c g c g g t c c c t c g t t a c c g t c g c g c g g c t g g c g c t a c c c g a c a c c g g t t a t c g c c g a

AscIBlpI 1980 hPGK promoter CSAGRAESSGREGAVREAGC EAPRASLLPRSPATRSAPHP *CPAGLAAAPFPRHPLRPT g c t c a g c a g g g c g c g c c g a g a g c a g c g g c c g g g a a g g g g c g g t g c g g g a g g c g g g g t g t g c g a g t c g t c c c g c g c g g c t c t c g t c g c c g g c c c t t c c c c g c c a c g c c c t c c g c c c c a c a c

2040 hPGK promoter G T G T T C C G C A T T C T G C A A G hPGK-F GAVVWALFLPARCSAFCKPP ATTHARNRGARHEANQLGGS PRYHPGQEQGRPTGCEALRR g g g c g g t a g t g t g g g c c c t g t t c c t g c c c g c g c g g t g t t c c g c a t t c t g c a a g c c t c c g g c c c g c c a t c a c a c c c g g g a c a a g g a c g g g c g c g c c a c a a g g c g t a a g a c g t t c g g a g g c c

BamHIHincII 2100 hPGK promoter ERTSAVGSLVDRITDLSPQG RVDATPERTSRIVSREGWPS LARRCDAGENVSDGVERGLP a g c g c a c g t c g g c a g t c g g c t c c c t c g t t g a c c g a a t c a c c g a c c t c t c t c c c c a g g g g g t c g c g t g c a g c c g t c a g c c g a g g g a g c a a c t g g c t t a g t g g c t g g a g a g a g g g g t c c c c c

2160 1 5 10 MTEYKPTVRLATRD PuroR T A C T G G C T C A T G T T C G G G T G Puro-R DPPELTMTEYKPTVRLATRD GGSSVM IWRLKGHGLVLGRHAEGGAV a t c c a c c g g a g c t t a c c a t g a c c g a g t a c a a g c c c a c g g t g c g c c t c g c c a c c c g c g a c g t a g g t g g c c t c g a a t g g t a c t g g c t c a t g t t c g g g t g c c a c g c g g a g c g g t g g g c g c t g c

BsiWI 2220 15 20 25 30 DVPRAVRTLAAAFADYPATR PuroR DVPRAVRTLAAAFADYPATR VDGPGYAGEGGREGVVGGRA a c g t c c c c a g g g c c g t a c g c a c c c t c g c c g c c g c g t t c g c c g a c t a c c c c g c c a c g c g c c t g c a g g g g t c c c g g c a t g c g t g g g a g c g g c g g c g c a a g c g g c t g a t g g g g c g g t g c g c g g

BstEIIRsrII 2280 35 40 45 50 HTVDPDRHIERVTELQELFL PuroR HTVDPDRHIERVTELQELFL VGDIRVAVDLPDGLQLFEEE a c a c c g t c g a t c c g g a c c g c c a c a t c g a g c g g g t c a c c g a g c t g c a a g a a c t c t t c c t c a t g t g g c a g c t a g g c c t g g c g g t g t a g c t c g c c c a g t g g c t c g a c g t t c t t g a g a a g g a g t

2340 55 60 65 70 TRVGLDIGKVWVADDGAAVA PuroR TRVGLDIGKVWVADDGAAVA RADPEVDALHPDRVVAGRHR c g c g c g t c g g g c t c g a c a t c g g c a a g g t g t g g g t c g c g g a c g a c g g c g c c g c g g t g g c g g g c g c g c a g c c c g a g c t g t a g c c g t t c c a c a c c c a g c g c c t g c t g c c g c g g c g c c a c c g c c

2400 75 80 85 90 VWTTPESVEAGAVFAEIGPR PuroR VWTTPESVEAGAVFAEIGPR DPGRRLADFRPRHEGLDARA t c t g g a c c a c g c c g g a g a g c g t c g a a g c g g g g g c g g t g t t c g c c g a g a t c g g c c c g c g c a a g a c c t g g t g c g g c c t c t c g c a g c t t c g c c c c c g c c a c a a g c g g c t c t a g c c g g g c g c g t

2460 95 100 105 110 MAELSGSRLAAQQQMEGLLA PuroR MAELSGSRLAAQQQMEGLLA HGLQATGPQGRLLLHFAEQR t g g c c g a g t t g a g c g g t t c c c g g c t g g c c g c g c a g c a a c a g a t g g a a g g c c t c c t g g c g c a c c g g c t c a a c t c g c c a a g g g c c g a c c g g c g c g t c g t t g t c t a c c t t c c g g a g g a c c g c g

2520 115 120 125 130 PHRPKEPAWFLATVGVSPDH PuroR PHRPKEPAWFLATVGVSPDH RVPGLLGRPEQGGDADRGVV c g c a c c g g c c c a a g g a g c c c g c g t g g t t c c t g g c c a c c g t c g g c g t c t c g c c c g a c c a c c g c g t g g c c g g g t t c c t c g g g c g c a c c a a g g a c c g g t g g c a g c c g c a g a g c g g g c t g g t g g

2580 135 140 145 150 QGKGLGSAVVLPGVEAAERA PuroR QGKGLGSAVVLPGVEAAERA LALTQAAGDHEGSHLRGLAG a g g g c a a g g g t c t g g g c a g c g c c g t c g t g c t c c c c g g a g t g g a g g c g g c c g a g c g c g c c g t c c c g t t c c c a g a c c c g t c g c g g c a g c a c g a g g g g c c t c a c c t c c g c c g g c t c g c g c g g c

2640 155 160 165 170 GVPAFLETSAPRNLPFYERL PuroR G C A A C C T C C C C T T C T A C G A G C Puro-F GVPAFLETSAPRNLPFYERL PHGGEQLGGRGAVEGEVLPE g g g t g c c c g c c t t c c t g g a g a c c t c c g c g c c c c g c a a c c t c c c c t t c t a c g a g c g g c t c g c c c a c g g g c g g a a g g a c c t c t g g a g g c g c g g g g c g t t g g a g g g g a a g a t g c t c g c c g a g c

SexAI*CsiI 2700 175 180 185 190 GFTVTADVEVPEGPRTWCMT PuroR GFTVTADVEVPEGPRTWCMT AEGDGGVDLHGFSRAGPAHG g c t t c a c c g t c a c c g c c g a c g t c g a g g t g c c c g a a g g a c c g c g c a c c t g g t g c a t g a c c c c g a a g t g g c a g t g g c g g c t g c a g c t c c a c g g g c t t c c t g g c g c g t g g a c c a c g t a c t g g g

2760 195 200 RKPGA* PuroR RKPGA* ALGTGSARGVVRLARGFPAC g c a a g c c c g g t g c c t g a c g c c c g c c c c a c g a c c c g c a g c g c c c g a c c g a a a g g a g c g c a c c g t t c g g g c c a c g g a c t g c g g g c g g g g t g c t g g g c g t c g c g g g c t g g c t t t c c t c g c g t g

NsiIAcc65IKpnI 2820 SGM g a c c c c a t g c a t c g g t a c c t t t a a g a c c a a t g a c t t a c a a g g c a g c t g t a g a t c t t a g c c c t g g g g t a c g t a g c c a t g g a a a t t c t g g t t a c t g a a t g t t c c g t c g a c a t c t a g a a t c g g

BbsI 2880 3' LTR ( Δ U3) a c t t t t t a a a a g a a a a g g g g g g a c t g g a a g g g c t a a t t c a c t c c c a a c g a a g a c a a g a t c t g a a a a a t t t t c t t t t c c c c c c t g a c c t t c c c g a t t a a g t g a g g g t t g c t t c t g t t c t a g

2940 3' LTR ( Δ U3) t g c t t t t t g c t t g t a c t g g g t c t c t c t g g t t a g a c c a g a t c t g a g c c t g g g a g c t c t c t g a c g a a a a a c g a a c a t g a c c c a g a g a g a c c a a t c t g g t c t a g a c t c g g a c c c t c g a g a g a c

3000 3' LTR ( Δ U3) g c t a a c t a g g g a a c c c a c t g c t t a a g c c t c a a t a a a g c t t g c c t t g a g t g c t t c a a g t a g c g a t t g a t c c c t t g g g t g a c g a a t t c g g a g t t a t t t c g a a c g g a a c t c a c g a a g t t c a t c

3060 3' LTR ( Δ U3) t g t g t g c c c g t c t g t t g t g t g a c t c t g g t a a c t a g a g a t c c c t c a g a c c c t t t t a g t c a g a c a c a c g g g c a g a c a a c a c a c t g a g a c c a t t g a t c t c t a g g g a g t c t g g g a a a a t c a g t c

3120 3' LTR ( Δ U3) t g t g g a a a a t c t c t a g c a g t a g t a g t t c a t g t c a t c t t a t t a t t c a g t a t t t a t a a c t t g a c a c c t t t t a g a g a t c g t c a t c a t c a a g t a c a g t a g a a t a a t a a g t c a t a a a t a t t g a a c

3180 SV40 poly(A) signal c a a a g a a a t g a a t a t c a g a g a g t g a g a g g a a c t t g t t t a t t g c a g c t t a t a a t g g t t a c a g t t t c t t t a c t t a t a g t c t c t c a c t c t c c t t g a a c a a a t a a c g t c g a a t a t t a c c a a t g t

3240 SV40 poly(A) signal C G T T A T C G T A G T G T T T A A A G SV40pA-R a a t a a a g c a a t a g c a t c a c a a a t t t c a c a a a t a a a g c a t t t t t t t c a c t g c a t t c t a g t t t t a t t t c g t t a t c g t a g t g t t t a a a g t g t t t a t t t c g t a a a a a a a g t g a c g t a a g a t c a a

3300 SV40 poly(A) signal G T G G T T T G T C C A A A C T C A T C EBV-rev g t g g t t t g t c c a a a c t c a t c a a t g t a t c t t a t c a t g t c t g g c t c t a g c t a t c c c g c c c c t c a c c a a a c a g g t t t g a g t a g t t a c a t a g a a t a g t a c a g a c c g a g a t c g a t a g g g c g g g g a

3360 SV40 ori a a c t c c g c c c a t c c c g c c c c t a a c t c c g c c c a g t t c c g c c c a t t c t c c g c c c c a t g g c t g t t g a g g c g g g t a g g g c g g g g a t t g a g g c g g g t c a a g g c g g g t a a g a g g c g g g g t a c c g a c

SfiI 3420 SV40 ori a c t a a t t t t t t t t a t t t a t g c a g a g g c c g a g g c c g c c t c g g c c t c t g a g c t a t t c c a g a a t g a t t a a a a a a a a t a a a t a c g t c t c c g g c t c c g g c g g a g c c g g a g a c t c g a t a a g g t c t t

AvrII 3480 SV40 ori T7 promoter G G G A T A T C A C T C A G C T7 g t a g t g a g g a g g c t t t t t t g g a g g c c t a g g g a c g t a c c c a a t t c g c c c t a t a g t g a g t c g c a t c a c t c c t c c g a a a a a a c c t c c g g a t c c c t g c a t g g g t t a a g c g g g a t a t c a c t c a g c

3540 T7 promoter M13 fwd A T A A T T7 T G A C C G G C A G C A A A A T G T M13 Forward G C A A A A T G T T G C A G C A C T G A C C C M13/pUC Forward t a t t a c g c g c g c t c a c t g g c c g t c g t t t t a c a a c g t c g t g a c t g g g a a a a c c c t g g c g t t a t a a t g c g c g c g a g t g a c c g g c a g c a a a a t g t t g c a g c a c t g a c c c t t t t g g g a c c g c a a

3600 a c c c a a c t t a a t c g c c t t g c a g c a c a t c c c c c t t t c g c c a g c t g g c g t a a t a g c g a a g a g t g g g t t g a a t t a g c g g a a c g t c g t g t a g g g g g a a a g c g g t c g a c c g c a t t a t c g c t t c t c

3660 f1 ori g c c c g c a c c g a t c g c c c t t c c c a a c a g t t g c g c a g c c t g a a t g g c g a a t g g g a c g c g c c c c g g g c g t g g c t a g c g g g a a g g g t t g t c a a c g c g t c g g a c t t a c c g c t t a c c c t g c g c g g g

3720 f1 ori t g t a g c g g c g c a t t a a g c g c g g c g g g t g t g g t g g t t a c g c g c a g c g t g a c c g c t a c a c t t a c a t c g c c g c g t a a t t c g c g c c g c c c a c a c c a c c a a t g c g c g t c g c a c t g g c g a t g t g a a

NgoMIVNaeI 3780 f1 ori G A G G A A A G C G A A A G A A G G G A F1ori-R g c c a g c g c c c t a g c g c c c g c t c c t t t c g c t t t c t t c c c t t c c t t t c t c g c c a c g t t c g c c c g g t c g c g g g a t c g c g g g c g a g g a a a g c g a a a g a a g g g a a g g a a a g a g c g g t g c a a g c g g

3840 f1 ori g g c t t t c c c c g t c a a g c t c t a a a t c g g g g g c t c c c t t t a g g g t t c c g a t t t a g t g c t t t a c c g a a a g g g g c a g t t c g a g a t t t a g c c c c c g a g g g a a a t c c c a a g g c t a a a t c a c g a a a t

3900 f1 ori c g g c a c c t c g a c c c c a a a a a a c t t g a t t a g g g t g a t g g t t c a c g t a g t g g g c c a t c g c c c g c c g t g g a g c t g g g g t t t t t t g a a c t a a t c c c a c t a c c a a g t g c a t c a c c c g g t a g c g g g

3960 f1 ori G T G G A C T C T T G F1ori-F t g a t a g a c g g t t t t t c g c c c t t t g a c g t t g g a g t c c a c g t t c t t t a a t a g t g g a c t c t t g a c t a t c t g c c a a a a a g c g g g a a a c t g c a a c c t c a g g t g c a a g a a a t t a t c a c c t g a g a a c

4020 f1 ori T T C C A A A C T G G F1ori-F t t c c a a a c t g g a a c a a c a c t c a a c c c t a t c t c g g t c t a t t c t t t t g a t t t a t a a g g g a t t a a g g t t t g a c c t t g t t g t g a g t t g g g a t a g a g c c a g a t a a g a a a a c t a a a t a t t c c c t a a

4080 f1 ori t t g c c g a t t t c g g c c t a t t g g t t a a a a a a t g a g c t g a t t t a a c a a a a a t t t a a c g c g a a t a a c g g c t a a a g c c g g a t a a c c a a t t t t t t a c t c g a c t a a a t t g t t t t t a a a t t g c g c t t a

4140 f1 ori AmpR promoter t t t a a c a a a a t a t t a a c g c t t a c a a t t t a g g t g g c a c t t t t c g g g g a a a t g t g c g c g g a a a a a t t g t t t t a t a a t t g c g a a t g t t a a a t c c a c c g t g a a a a g c c c c t t t a c a c g c g c c t t

4200 AmpR promoter c c c c t a t t t g t t t a t t t t t c t a a a t a c a t t c a a a t a t g t a t c c g c t c a t g a g a c a a t a a c g g g g a t a a a c a a a t a a a a a g a t t t a t g t a a g t t t a t a c a t a g g c g a g t a c t c t g t t a t t g

4260 1 5 signal sequence MSIQHFR AmpR promoter AmpR MSIQHFR c c t g a t a a a t g c t t c a a t a a t a t t g a a a a a g g a a g a g t a t g a g t a t t c a a c a t t t c c g t g g g a c t a t t t a c g a a g t t a t t a t a a c t t t t t c c t t c t c a t a c t c a t a a g t t g t a a a g g c a c

4320 10 15 20 signal sequence VALIPFFAAFCLPVFA 25 HPET AmpR VALIPFFAAFCLPVFAHPET t c g c c c t t a t t c c c t t t t t t g c g g c a t t t t g c c t t c c t g t t t t t g c t c a c c c a g a a a c g c a g c g g g a a t a a g g g a a a a a a c g c c g t a a a a c g g a a g g a c a a a a a c g a g t g g g t c t t t g c g

4380 30 35 40 45 LVKVKDAEDQLGARVGYIEL AmpR LVKVKDAEDQLGARVGYIEL t g g t g a a a g t a a a a g a t g c t g a a g a t c a g t t g g g t g c a c g a g t g g g t t a c a t c g a a c t g g a c c a c t t t c a t t t t c t a c g a c t t c t a g t c a a c c c a c g t g c t c a c c c a a t g t a g c t t g a c c

4440 50 55 60 65 DLNSGKILESFRPEERFPMM AmpR DLNSGKILESFRPEERFPMM a t c t c a a c a g c g g t a a g a t c c t t g a g a g t t t t c g c c c c g a a g a a c g t t t t c c a a t g a t g a t a g a g t t g t c g c c a t t c t a g g a a c t c t c a a a a g c g g g g c t t c t t g c a a a a g g t t a c t a c t

4500 70 75 80 85 STFKVLLCGAVLSRIDAGQE AmpR C G A T A C A C C G C G C C A T A A T A Amp-R STFKVLLCGAVLSRIDAGQE g c a c t t t t a a a g t t c t g c t a t g t g g c g c g g t a t t a t c c c g t a t t g a c g c c g g g c a a g a g c c g t g a a a a t t t c a a g a c g a t a c a c c g c g c c a t a a t a g g g c a t a a c t g c g g c c c g t t c t c g

ScaI 4560 90 95 100 105 QLGRRIHYSQNDLVEYSPVT AmpR QLGRRIHYSQNDLVEYSPVT a a c t c g g t c g c c g c a t a c a c t a t t c t c a g a a t g a c t t g g t t g a g t a c t c a c c a g t c a c a g t t g a g c c a g c g g c g t a t g t g a t a a g a g t c t t a c t g a a c c a a c t c a t g a g t g g t c a g t g t c

4620 110 115 120 125 EKHLTDGMTVRELCSAAITM AmpR EKHLTDGMTVRELCSAAITM a a a a g c a t c t t a c g g a t g g c a t g a c a g t a a g a g a a t t a t g c a g t g c t g c c a t a a c c a t g a t t t t c g t a g a a t g c c t a c c g t a c t g t c a t t c t c t t a a t a c g t c a c g a c g g t a t t g g t a c t

4680 130 135 140 145 SDNTAANLLLTTIGGPKELT AmpR SDNTAANLLLTTIGGPKELT g t g a t a a c a c t g c g g c c a a c t t a c t t c t g a c a a c g a t c g g a g g a c c g a a g g a g c t a a c c g c a c t a t t g t g a c g c c g g t t g a a t g a a g a c t g t t g c t a g c c t c c t g g c t t c c t c g a t t g g c

4740 150 155 160 165 AFLHNMGDHVTRLDRWEPEL AmpR AFLHNMGDHVTRLDRWEPEL c t t t t t t g c a c a a c a t g g g g g a t c a t g t a a c t c g c c t t g a t c g t t g g g a a c c g g a g c t g a g a a a a a a c g t g t t g t a c c c c c t a g t a c a t t g a g c g g a a c t a g c a a c c c t t g g c c t c g a c t

4800 170 175 180 185 NEAIPNDERDTTMPVAMATT AmpR NEAIPNDERDTTMPVAMATT a t g a a g c c a t a c c a a a c g a c g a g c g t g a c a c c a c g a t g c c t g t a g c a a t g g c a a c a a c g t t a c t t c g g t a t g g t t t g c t g c t c g c a c t g t g g t g c t a c g g a c a t c g t t a c c g t t g t t g c a

4860 190 195 200 205 LRKLLTGELLTLASRQQLID AmpR LRKLLTGELLTLASRQQLID t g c g c a a a c t a t t a a c t g g c g a a c t a c t t a c t c t a g c t t c c c g g c a a c a a t t a a t a g a c t a c g c g t t t g a t a a t t g a c c g c t t g a t g a a t g a g a t c g a a g g g c c g t t g t t a a t t a t c t g a

4920 210 215 220 225 WMEADKVAGPLLRSALPAGW AmpR WMEADKVAGPLLRSALPAGW g g a t g g a g g c g g a t a a a g t t g c a g g a c c a c t t c t g c g c t c g g c c c t t c c g g c t g g c t g g t c c t a c c t c c g c c t a t t t c a a c g t c c t g g t g a a g a c g c g a g c c g g g a a g g c c g a c c g a c c a

4980 230 235 240 245 FIADKSGAGERGSRGIIAAL AmpR FIADKSGAGERGSRGIIAAL t t a t t g c t g a t a a a t c t g g a g c c g g t g a g c g t g g g t c t c g c g g t a t c a t t g c a g c a c t g g a a t a a c g a c t a t t t a g a c c t c g g c c a c t c g c a c c c a g a g c g c c a t a g t a a c g t c g t g a c c

5040 250 255 260 265 GPDGKPSRIVVIYTTGSQAT AmpR GPDGKPSRIVVIYTTGSQAT g g c c a g a t g g t a a g c c c t c c c g t a t c g t a g t t a t c t a c a c g a c g g g g a g t c a g g c a a c t a c c g g t c t a c c a t t c g g g a g g g c a t a g c a t c a a t a g a t g t g c t g c c c c t c a g t c c g t t g a t

5100 270 275 280 285 MDERNRQIAEIGASLIKHW* AmpR MDERNRQIAEIGASLIKHW* t g g a t g a a c g a a a t a g a c a g a t c g c t g a g a t a g g t g c c t c a c t g a t t a a g c a t t g g t a a c a c c t a c t t g c t t t a t c t g t c t a g c g a c t c t a t c c a c g g a g t g a c t a a t t c g t a a c c a t t g

5160 t g t c a g a c c a a g t t t a c t c a t a t a t a c t t t a g a t t g a t t t a a a a c t t c a t t t t t a a t t t a a c a g t c t g g t t c a a a t g a g t a t a t a t g a a a t c t a a c t a a a t t t t g a a g t a a a a a t t a a a t

5220 a a a g g a t c t a g g t g a a g a t c c t t t t t g a t a a t c t c a t g a c c a a a a t c c c t t a a c g t g a g t t t t c c t a g a t c c a c t t c t a g g a a a a a c t a t t a g a g t a c t g g t t t t a g g g a a t t g c a c t c a

5280 ori t t t c g t t c c a c t g a g c g t c a g a c c c c g t a g a a a a g a t c a a a g g a t c t t c t t g a g a t c c t t a a a g c a a g g t g a c t c g c a g t c t g g g g c a t c t t t t c t a g t t t c c t a g a a g a a c t c t a g g a a

5340 ori t t t t t c t g c g c g t a a t c t g c t g c t t g c a a a c a a a a a a a c c a c c g c t a c c a g c g g t g g t t t a a a a a g a c g c g c a t t a g a c g a c g a a c g t t t g t t t t t t t g g t g g c g a t g g t c g c c a c c a a a

5400 ori g t t t g c c g g a t c a a g a g c t a c c a a c t c t t t t t c c g a a g g t a a c t g g c t t c a g c a g a g c g c c a a a c g g c c t a g t t c t c g a t g g t t g a g a a a a a g g c t t c c a t t g a c c g a a g t c g t c t c g c g

5460 ori a g a t a c c a a a t a c t g t t c t t c t a g t g t a g c c g t a g t t a g g c c a c c a c t t c a a g a a c t c t g t c t a t g g t t t a t g a c a a g a a g a t c a c a t c g g c a t c a a t c c g g t g g t g a a g t t c t t g a g a c

5520 ori t a g c a c c g c c t a c a t a c c t c g c t c t g c t a a t c c t g t t a c c a g t g g c t g c t g c c a g t g g c g a t c g t g g c g g a t g t a t g g a g c g a g a c g a t t a g g a c a a t g g t c a c c g a c g a c g g t c a c c g c

5580 ori a t a a g t c g t g t c t t a c c g g g t t g g a c t c a a g a c g a t a g t t a c c g g a t a a g g c g c a g c g g t t a t t c a g c a c a g a a t g g c c c a a c c t g a g t t c t g c t a t c a a t g g c c t a t t c c g c g t c g c c a

5640 ori c g g g c t g a a c g g g g g g t t c g t g c a c a c a g c c c a g c t t g g a g c g a a c g a c c t a c a c c g a a c g c c c g a c t t g c c c c c c a a g c a c g t g t g t c g g g t c g a a c c t c g c t t g c t g g a t g t g g c t t g

5700 ori t g a g a t a c c t a c a g c g t g a g c t a t g a g a a a g c g c c a c g c t t c c c g a a g g g a g a a a g g c g g a c t c t a t g g a t g t c g c a c t c g a t a c t c t t t c g c g g t g c g a a g g g c t t c c c t c t t t c c g c c

5760 ori G G pBR322ori-F a c a g g t a t c c g g t a a g c g g c a g g g t c g g a a c a g g a g a g c g c a c g a g g g a g c t t c c a g g g g t g t c c a t a g g c c a t t c g c c g t c c c a g c c t t g t c c t c t c g c g t g c t c c c t c g a a g g t c c c c

5820 ori G A A A C G C C T G G T A T C T T T pBR322ori-F g a a a c g c c t g g t a t c t t t a t a g t c c t g t c g g g t t t c g c c a c c t c t g a c t t g a g c g t c g a t c t t t g c g g a c c a t a g a a a t a t c a g g a c a g c c c a a a g c g g t g g a g a c t g a a c t c g c a g c t a

5880 ori t t t t g t g a t g c t c g t c a g g g g g g c g g a g c c t a t g g a a a a a c g c c a g c a a c g c g g c c t t t t a a a a c a c t a c g a g c a g t c c c c c c g c c t c g g a t a c c t t t t t g c g g t c g t t g c g c c g g a a a a

AflIIIPciI 5940 t a c g g t t c c t g g c c t t t t g c t g g c c t t t t g c t c a c a t g t t c t t t c c t g c g t t a t c c c c t g a t g c c a a g g a c c g g a a a a c g a c c g g a a a a c g a g t g t a c a a g a a a g g a c g c a a t a g g g g a c

6000 a t t c t g t g g a t a a c c g t a t t a c c g c c t t t g a g t g a g c t g a t a c c g c t c g c c g c a g c c g a a t a a g a c a c c t a t t g g c a t a a t g g c g g a a a c t c a c t c g a c t a t g g c g a g c g g c g t c g g c t t

6060 A G C G A G T C A G T G A G C G A G L4440 c g a c c g a g c g c a g c g a g t c a g t g a g c g a g g a a g c g g a a g a g c g c c c a a t a c g c a a a c c g c g c t g g c t c g c g t c g c t c a g t c a c t c g c t c c t t c g c c t t c t c g c g g g t t a t g c g t t t g g c g

6120 c t c t c c c c g c g c g t t g g c c g a t t c a t t a a t g c a g c t g g c a c g a c a g g t t t c c c g a c t g g a g a g a g g g g c g c g c a a c c g g c t a a g t a a t t a c g t c g a c c g t g c t g t c c a a a g g g c t g a c c t

6180 CAP binding site a a g c g g g c a g t g a g c g c a a c g c a a t t a a t g t g a g t t a g c t c a c t c a t t a g g c a c c c c a g g t t c g c c c g t c a c t c g c g t t g c g t t a a t t a c a c t c a a t c g a g t g a g t a a t c c g t g g g g t c c

6240 -35 -10 lac promoter lac operator A G C G G A T A A C A A T T T C M13/pUC Reverse c t t t a c a c t t t a t g c t t c c g g c t c g t a t g t t g t g t g g a a t t g t g a g c g g a t a a c a a t t t c g a a a t g t g a a a t a c g a a g g c c g a g c a t a c a a c a c a c c t t a a c a c t c g c c t a t t g t t a a a g

6300 M13 rev T3 promoter A C A C A G G M13/pUC Reverse C A G G A A A C A G C T A T G A C M13 Reverse G C A A T T A A C C C T C A C T A A A G G T3 a c a c a g g a a a c a g c t a t g a c c a t g a t t a c g c c a a g c g c g c a a t t a a c c c t c a c t a a a g g g t g t g t c c t t t g t c g a t a c t g g t a c t a a t g c g g t t c g c g c g t t a a t t g g g a g t g a t t t c c c

6360 RSV promoter a a c a a a a g c t g g a g c t g c a a g c t t a a t g t a g t c t t a t g c a a t a c t c t t g t a g t c t t g c a a t t g t t t t c g a c c t c g a c g t t c g a a t t a c a t c a g a a t a c g t t a t g a g a a c a t c a g a a c g t t

SphI 6420 RSV promoter c a t g g t a a c g a t g a g t t a g c a a c a t g c c t t a c a a g g a g a g a a a a a g c a c c g t g c a t g c c g g t a c c a t t g c t a c t c a a t c g t t g t a c g g a a t g t t c c t c t c t t t t t c g t g g c a c g t a c g g c

6480 RSV promoter a t t g g t g g a a g t a a g g t g g t a c g a t c g t g c c t t a t t a g g a a g g c a a c a g a c g g g t c t g a c t a a c c a c c t t c a t t c c a c c a t g c t a g c a c g g a a t a a t c c t t c c g t t g t c t g c c c a g a c t g

6540 RSV promoter a t g g a t t g g a c g a a c c a c t g a a t t g c c g c a t t g c a g a g a t a t t g t a t t t a a g t g c c t a g c t a c c t a a c c t g c t t g g t g a c t t a a c g g c g t a a c g t c t c t a t a a c a t a a a t t c a c g g a t c g

6600 RSV promoter 5' LTR (truncated) t c g a t a c a t a a a c g g g t c t c t c t g g t t a g a c c a g a t c t g a g c c t g g g a g c t c t c t g g c t a a g c t a t g t a t t t g c c c a g a g a g a c c a a t c t g g t c t a g a c t c g g a c c c t c g a g a g a c c g a t

6660 5' LTR (truncated) a c t a g g g a a c c c a c t g c t t a a g c c t c a a t a a a g c t t g c c t t g a g t g c t t c a a g t a g t g t g t g a t c c c t t g g g t g a c g a a t t c g g a g t t a t t t c g a a c g g a a c t c a c g a a g t t c a t c a c a c

6720 5' LTR (truncated) t g c c c g t c t g t t g t g t g a c t c t g g t a a c t a g a g a t c c c t c a g a c c c t t t t a g t c a g t g t g a c g g g c a g a c a a c a c a c t g a g a c c a t t g a t c t c t a g g g a g t c t g g g a a a a t c a g t c a c a c

6780 5' LTR (truncated) g a a a a t c t c t a g c a g t g g c g c c c g a a c a g g g a c t t g a a a g c g a a a g g g a a a c c a g a g g a g c t t t t a g a g a t c g t c a c c g c g g g c t t g t c c c t g a a c t t t c g c t t t c c c t t t g g t c t c c t c

6840 HIV-1 Ψ c t c t c t c g a c g c a g g a c t c g g c t t g c t g a a g c g c g c a c g g c a a g a g g c g a g g g g c g g c g a g a g a g a g c t g c g t c c t g a g c c g a a c g a c t t c g c g c g t g c c g t t c t c c g c t c c c c g c c g c t

6900 HIV-1 Ψ c t g g t g a g t a c g c c a a a a a t t t t g a c t a g c g g a g g c t a g a a g g a g a g a g a t g g g t g c g a g g a c c a c t c a t g c g g t t t t t a a a a c t g a t c g c c t c c g a t c t t c c t c t c t c t a c c c a c g c t c

NruI* 6960 HIV-1 Ψ a g c g t c a g t a t t a a g c g g g g g a g a a t t a g a t c g c g a t g g g a a a a a a t t c g g t t a a g g c c a t c g c a g t c a t a a t t c g c c c c c t c t t a a t c t a g c g c t a c c c t t t t t t a a g c c a a t t c c g g t

7020 g g g g g a a a g a a a a a a t a t a a a t t a a a a c a t a t a g t a t g g g c a a g c a g g g a g c t a g a a c g a c c c c c t t t c t t t t t t a t a t t t a a t t t t g t a t a t c a t a c c c g t t c g t c c c t c g a t c t t g c t

7080 t t c g c a g t t a a t c c t g g c c t g t t a g a a a c a t c a g a a g g c t g t a g a c a a a t a c t g g g a c a g a a g c g t c a a t t a g g a c c g g a c a a t c t t t g t a g t c t t c c g a c a t c t g t t t a t g a c c c t g t c

7140 c t a c a a c c a t c c c t t c a g a c a g g a t c a g a a g a a c t t a g a t c a t t a t a t a a t a c a g t a g c a g a t g t t g g t a g g g a a g t c t g t c c t a g t c t t c t t g a a t c t a g t a a t a t a t t a t g t c a t c g t

7200 a c c c t c t a t t g t g t g c a t c a a a g g a t a g a g a t a a a a g a c a c c a a g g a a g c t t t a g a c a a g t g g g a g a t a a c a c a c g t a g t t t c c t a t c t c t a t t t t c t g t g g t t c c t t c g a a a t c t g t t c

7260 a t a g a g g a a g a g c a a a a c a a a a g t a a g a c c a c c g c a c a g c a a g c g g c c g c t g a t c t t c a g t a t c t c c t t c t c g t t t t g t t t t c a t t c t g g t g g c g t g t c g t t c g c c g g c g a c t a g a a g t c

MfeIEcoNI 7320 MRDNWRSELYKYKVV a c c t g g a g g a g g a g a t a t g a g g g a c a a t t g g a g a a g t g a a t t a t a t a a a t a t a a a g t a g t t g g a c c t c c t c c t c t a t a c t c c c t g t t a a c c t c t t c a c t t a a t a t a t t t a t a t t t c a t c a

7380 KIEPLGVAPTKAKRRVVQRE a a a a a t t g a a c c a t t a g g a g t a g c a c c c a c c a a g g c a a a g a g a a g a g t g g t g c a g a g a g a t t t t t a a c t t g g t a a t c c t c a t c g t g g g t g g t t c c g t t t c t c t t c t c a c c a c g t c t c t c t

7440 RRE KRAVGIGALFLGFLGAAGST a a a a a g a g c a g t g g g a a t a g g a g c t t t g t t c c t t g g g t t c t t g g g a g c a g c a g g a a g c a c t t t t t c t c g t c a c c c t t a t c c t c g a a a c a a g g a a c c c a a g a a c c c t c g t c g t c c t t c g t g

7500 RRE MGAASMTLTVQARQLLSGIV t a t g g g c g c a g c g t c a a t g a c g c t g a c g g t a c a g g c c a g a c a a t t a t t g t c t g g t a t a g t a t a c c c g c g t c g c a g t t a c t g c g a c t g c c a t g t c c g g t c t g t t a a t a a c a g a c c a t a t c a

BbvCI 7560 RRE QQQNNLLRAIEAQQHLLQLT g c a g c a g c a g a a c a a t t t g c t g a g g g c t a t t g a g g c g c a a c a g c a t c t g t t g c a a c t c a c c g t c g t c g t c t t g t t a a a c g a c t c c c g a t a a c t c c g c g t t g t c g t a g a c a a c g t t g a g t g

7620 RRE VWGIKQLQARILAVERYLKD a g t c t g g g g c a t c a a g c a g c t c c a g g c a a g a a t c c t g g c t g t g g a a a g a t a c c t a a a g g a t c a g a c c c c g t a g t t c g t c g a g g t c c g t t c t t a g g a c c g a c a c c t t t c t a t g g a t t t c c t

7680 RRE QQLLGIWGCSGKLICTTAVP t c a a c a g c t c c t g g g g a t t t g g g g t t g c t c t g g a a a a c t c a t t t g c a c c a c t g c t g t g c c a g t t g t c g a g g a c c c c t a a a c c c c a a c g a g a c c t t t t g a g t a a a c g t g g t g a c g a c a c g g

7740 WNASWSNKSLEQIWNHTTWM t t g g a a t g c t a g t t g g a g t a a t a a a t c t c t g g a a c a g a t t t g g a a t c a c a c g a c c t g g a t a a c c t t a c g a t c a a c c t c a t t a t t t a g a g a c c t t g t c t a a a c c t t a g t g t g c t g g a c c t a

7800 EWDREINNYTSLIHSLIEES g g a g t g g g a c a g a g a a a t t a a c a a t t a c a c a a g c t t a a t a c a c t c c t t a a t t g a a g a a t c c c t c a c c c t g t c t c t t t a a t t g t t a a t g t g t t c g a a t t a t g t g a g g a a t t a a c t t c t t a g

7860 1 5 10 15 KNEQELLELDKWASL gp41 peptide QNQQEKNEQELLELDKWASL g c a a a a c c a g c a a g a a a a g a a t g a a c a a g a a t t a t t g g a a t t a g a t a a a t g g g c a a g t t t c g t t t t g g t c g t t c t t t t c t t a c t t g t t c t t a a t a a c c t t a a t c t a t t t a c c c g t t c a a a

7920 (in frame with gp41 peptide) WNWFNITNWLWYIKLFIMIV gp41 peptide WNWFNITNWLWYIKLFIMIV g t g g a a t t g g t t t a a c a t a a c a a a t t g g c t g t g g t a t a t a a a a t t a t t c a t a a t g a t a g t c a c c t t a a c c a a a t t g t a t t g t t t a a c c g a c a c c a t a t a t t t t a a t a a g t a t t a c t a t c a

7980 (in frame with gp41 peptide) GGLVGLRIVFAVLSIVNRVR GGLVGLRIVFAVLSIVNRVR a g g a g g c t t g g t a g g t t t a a g a a t a g t t t t t g c t g t a c t t t c t a t a g t g a a t a g a g t t a g t c c t c c g a a c c a t c c a a a t t c t t a t c a a a a a c g a c a t g a a a g a t a t c a c t t a t c t c a a t c

PpuMIKflI 8040 (in frame with gp41 peptide) QGYSPLSFQTHLPTPRGPDR QGYSPLSFQTHLPTPRGPDR g c a g g g a t a t t c a c c a t t a t c g t t t c a g a c c c a c c t c c c a a c c c c g a g g g g a c c c g a c a g c g t c c c t a t a a g t g g t a a t a g c a a a g t c t g g g t g g a g g g t t g g g g c t c c c c t g g g c t g t c

8100 (in frame with gp41 peptide) PEGIEEEGGERDRDRSIRLV PEGIEEEGGERDRDRSIRLV g c c c g a a g g a a t a g a a g a a g a a g g t g g a g a g a g a g a c a g a g a c a g a t c c a t t c g a t t a g t c g g g c t t c c t t a t c t t c t t c t t c c a c c t c t c t c t c t g t c t c t g t c t a g g t a a g c t a a t c a

BspDI*ClaI* 8160 (in frame with gp41 peptide) NGSRRYRSRD* G A hU6-F NGSRRYRSRD* g a a c g g a t c t c g a c g g t a t c g a t c a c g a g a c t a g c c t c g a g c g g c c g c c c c c t t c a c c g a c t t g c c t a g a g c t g c c a t a g c t a g t g c t c t g a t c g g a g c t c g c c g g c g g g g g a a g t g g c t

8220 G G G C C T A T T T C C C A T G A T T hU6-F g g g c c t a t t t c c c a t g a t t c c t t c a t a t t t g c a t a t a c g a t a c a a g g c t g t t a g a g a g a t c c c g g a t a a a g g g t a c t a a g g a a g t a t a a a c g t a t a t g c t a t g t t c c g a c a a t c t c t c t a

8280 a a t t g g a a t t a a t t t g a c t g t a a a c a c a a a g a t a t t a g t a c a a a a t a c g t g a c g t a g a a a t t a a c c t t a a t t a a a c t g a c a t t t g t g t t t c t a t a a t c a t g t t t t a t g c a c t g c a t c t t t

8337 g t a a t a a t t t c t t g g g t a g t t t g c a g t t t t a a a a t t a t g t t t t a a a a t g g a c t a t c a c a t t a t t a a a g a a c c c a t c a a a c g t c a a a a t t t t a a t a c a a a a t t t t a c c t g a t a g t

Restriction Enzymes

Instructions: By default, all cutters are shown. Filter on number of cut sites or search by enzyme name.

Filter

Features

Primers

BLAST

BLAST (Basic Local Alignment Search Tool) finds regions of similarity between biological sequences. Click on the buttons below to submit a BLAST search to NCBI. The results will appear in a new window. See your recent BLAST results on NCBI's website.

  • Nucleotide-Nucleotide BLAST (BLASTN)

  • Translated Nucleotide-Protein BLAST (BLASTX)

  • Sequence alignment using BLAST (BLAST2)

Sequence Analyzer Guide

Map

Displays a graphical map based on nucleotide sequence data labeled with restriction enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. Hovering over data labels will display additional information (e.g. cut site)

To select a portion of sequence, click one location on the plasmid and then a second location to display the sequence between the two locations.

Sequence

Displays both strands of base paired nucleotide sequences with annotated enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. Hovering over data labels will display additional information (e.g. cut site).

To select a portion of sequence, click one location on the sequence and then a second location to display the sequence between the two locations.

Enzymes

List of restriction enzymes that can cut a given nucleotide sequence. Table lists enzyme name and the sequence location of the cut.

Features

List of common features detected in a given nucleotide sequence. Table lists feature name, location, size, color used to indicate its position on the map, and direction (if relevant).

Primers

List of commonly used primers detected in a given nucleotide sequence. Table lists primer name, sequence, length, binding site location, and direction.

BLAST

Use Basic Local Alignment Search Tool (BLAST) via the NCBI website to determine similarity between a given sequence and nucleotide (BLASTN) or protein (BLASTX) sequence databases. Additionally, align a custom nucleotide sequence against a given sequence using BLAST2.

File Downloads

GenBank

File contains the nucleotide sequence and annotated features in GenBank flat file format. Open the file with a text editor or plasmid mapping software to view the sequence.

SnapGene

File contains the nucleotide sequence and enhanced annotations from SnapGene Server. Open the file with SnapGene software or the free Viewer to view the plasmid map, sequence, and perform additional sequence analysis.