Addgene pAAV-hSyn-DIO-EGFP Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pAAV-hSyn-DIO-EGFP Sequencing Result


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PciI (5528) pBR322ori-F (5373 .. 5392) AlwNI (5119) AseI (4465) PvuI (4271) ScaI (4159) Amp-R (4071 .. 4090) pBRforEco (3662 .. 3680) pGEX 3' (3602 .. 3624) pRS-marker (3483 .. 3502) PsiI (3369) F1ori-F (3308 .. 3329) DraIII (3244) F1ori-R (3098 .. 3117) PmlI (2776) MluI (139) PspOMI (161) ApaI (165) FspAI (331) MreI - SgrAI (554) Acc65I (630) KpnI (634) BamHI (636) SalI (648) AccI (649) HincII (650) BspEI (654) AscI (779) BsrGI (791) EGFP-C (831 .. 852) EXFP-R (1180 .. 1199) EGFP-N (1439 .. 1460) NcoI (1502) NheI (1512) BmtI (1516) EcoRI (1636) EcoRV (1644) HindIII (1648) WPRE-R (1713 .. 1733) PflMI (1901) PaeR7I - XhoI (2266) BglII (2272) hGH-PA-R (2479 .. 2498) SphI (2596) NsiI (2598) BlpI (2607) BstXI (2714) BstEII (2768) pAAV-hSyn-DIO-EGFP 5533 bp

Sequence View

5ʹ 3ʹ 60 AAV2 ITR (alternate) c c t g c a g g c a g c t g c g c g c t c g c t c g c t c a c t g a g g c c g c c c g g g c g t c g g g c g a c c t t t g g a c g t c c g t c g a c g c g c g a g c g a g c g a g t g a c t c c g g c g g g c c c g c a g c c c g c t g g a a a

120 AAV2 ITR (alternate) g g t c g c c c g g c c t c a g t g a g c g a g c g a g c g c g c a g a g a g g g a g t g g c c a a c t c c a t c a c t c c a g c g g g c c g g a g t c a c t c g c t c g c t c g c g c g t c t c t c c c t c a c c g g t t g a g g t a g t g a

PspOMIApaIMluI 180 AAV2 ITR (alternate) hSyn promoter a g g g g t t c c t g c g g c c g c a c g c g t g t g t c t a g a c t g c a g a g g g c c c t g c g t a t g a g t g c a t c c c c a a g g a c g c c g g c g t g c g c a c a c a g a t c t g a c g t c t c c c g g g a c g c a t a c t c a c g t

240 hSyn promoter a g t g g g t t t t a g g a c c a g g a t g a g g c g g g g t g g g g g t g c c t a c c t g a c g a c c g a c c c c g a t c a c c c a a a a t c c t g g t c c t a c t c c g c c c c a c c c c c a c g g a t g g a c t g c t g g c t g g g g c t

300 hSyn promoter c c c a c t g g a c a a g c a c c c a a c c c c c a t t c c c c a a a t t g c g c a t c c c c t a t c a g a g a g g g g g g g t g a c c t g t t c g t g g g t t g g g g g t a a g g g g t t t a a c g c g t a g g g g a t a g t c t c t c c c c

FspAI 360 hSyn promoter g a g g g g a a a c a g g a t g c g g c g a g g c g c g t g c g c a c t g c c a g c t t c a g c a c c g c g g a c a g t c t c c c c t t t g t c c t a c g c c g c t c c g c g c a c g c g t g a c g g t c g a a g t c g t g g c g c c t g t c a

420 hSyn promoter g c c t t c g c c c c c g c c t g g c g g c g c g c g c c a c c g c c g c c t c a g c a c t g a a g g c g c g c t g a c c g g a a g c g g g g g c g g a c c g c c g c g c g c g g t g g c g g c g g a g t c g t g a c t t c c g c g c g a c t g

480 hSyn promoter g t c a c t c g c c g g t c c c c c g c a a a c t c c c c t t c c c g g c c a c c t t g g t c g c g t c c g c g c c g c c a g t g a g c g g c c a g g g g g c g t t t g a g g g g a a g g g c c g g t g g a a c c a g c g c a g g c g c g g c g

540 hSyn promoter c g c c g g c c c a g c c g g a c c g c a c c a c g c g a g g c g c g a g a t a g g g g g g c a c g g g c g c g a c c a g c g g c c g g g t c g g c c t g g c g t g g t g c g c t c c g c g c t c t a t c c c c c c g t g c c c g c g c t g g t

SgrAIMreI 600 hSyn promoter t c t g c g c t g c g g c g c c g g c g a c t c a g c g c t g c c t c a g t c t g c g g t g g g c a g c g g a g g a g t a g a c g c g a c g c c g c g g c c g c t g a g t c g c g a c g g a g t c a g a c g c c a c c c g t c g c c t c c t c a

SalIAccIHincIIBspEIAcc65IKpnIBamHI 660 hSyn promoter lox2272 c g t g t c g t g c c t g a g a g c g c a g t c g a g a a g g t a c c g g a t c c t c t a g a g t c g a c t c c g g a a g c a c a g c a c g g a c t c t c g c g t c a g c t c t t c c a t g g c c t a g g a g a t c t c a g c t g a g g c c t t

720 lox2272 t a a c t t c g t a t a g g a t a c t t t a t a c g a a g t t a t g c a g a a t g g t a g c t g g a t t g t a g c t g c a t t g a a g c a t a t c c t a t g a a a t a t g c t t c a a t a c g t c t t a c c a t c g a c c t a a c a t c g a c g

AscI 780 loxP t a t t a g c a a t a t g a a a c c t c t t a a t a a c t t c g t a t a g c a t a c a t t a t a c g a a g t t a t g g c a t a a t c g t t a t a c t t t g g a g a a t t a t t g a a g c a t a t c g t a t g t a a t a t g c t t c a a t a c c g

BsrGI 840 235 230 225 *KYLEDMGLTIGAATVFE EGFP * 235 230 225 KYLEDMGLTIGAATVFE EGFP G T G C T T G A G G EGFP-C *KYLEDMGLTIGAATVFE g c g c c c t a c t t g t a c a g c t c g t c c a t g c c g a g a g t g a t c c c g g c g g c g g t c a c g a a c t c c c g c g g g a t g a a c a t g t c g a g c a g g t a c g g c t c t c a c t a g g g c c g c c g c c a g t g c t t g a g g

900 220 215 210 205 LLVMHDRKENPDKSLASQTS EGFP 220 215 210 205 LLVMHDRKENPDKSLASQTS EGFP T C G T C C T G G T A C EGFP-C LLVMHDRKENPDKSLASQTS a g c a g g a c c a t g t g a t c g c g c t t c t c g t t g g g g t c t t t g c t c a g g g c g g a c t g g g t g c t c t c g t c c t g g t a c a c t a g c g c g a a g a g c a a c c c c a g a a a c g a g t c c c g c c t g a c c c a c g a g

960 200 195 190 185 LYHNDPLLVPGDGIPTNQQY EGFP 200 195 190 185 LYHNDPLLVPGDGIPTNQQY EGFP LYHNDPLLVPGDGIPTNQQY a g g t a g t g g t t g t c g g g c a g c a g c a c g g g g c c g t c g c c g a t g g g g g t g t t c t g c t g g t a g t c c a t c a c c a a c a g c c c g t c g t c g t g c c c c g g c a g c g g c t a c c c c c a c a a g a c g a c c a t c

1020 180 175 170 165 HDALQVSGDEINHRIKFNVK EGFP 180 175 170 165 HDALQVSGDEINHRIKFNVK EGFP HDALQVSGDEINHRIKFNVK t g g t c g g c g a g c t g c a c g c t g c c g t c c t c g a t g t t g t g g c g g a t c t t g a a g t t c a c c t t g a c c a g c c g c t c g a c g t g c g a c g g c a g g a g c t a c a a c a c c g c c t a g a a c t t c a a g t g g a a c

1080 160 155 150 145 IGNKQKDAMIYVNHSNYNYE EGFP 160 155 150 145 IGNKQKDAMIYVNHSNYNYE EGFP IGNKQKDAMIYVNHSNYNYE a t g c c g t t c t t c t g c t t g t c g g c c a t g a t a t a g a c g t t g t g g c t g t t g t a g t t g t a c t c c t a c g g c a a g a a g a c g a a c a g c c g g t a c t a t a t c t g c a a c a c c g a c a a c a t c a a c a t g a g g

1140 140 135 130 125 LKHGLINGDEKFDIGKLEIR EGFP 140 135 130 125 LKHGLINGDEKFDIGKLEIR EGFP LKHGLINGDEKFDIGKLEIR a g c t t g t g c c c c a g g a t g t t g c c g t c c t c c t t g a a g t c g a t g c c c t t c a g c t c g a t g c g g t c g a a c a c g g g g t c c t a c a a c g g c a g g a g g a a c t t c a g c t a c g g g a a g t c g a g c t a c g c c

1200 120 115 110 105 NVLTDGEFKVEARTKYNGDD EGFP 120 115 110 105 NVLTDGEFKVEARTKYNGDD EGFP G T C T T G T A G T T G C C G T C G T C EXFP-R NVLTDGEFKVEARTKYNGDD t t c a c c a g g g t g t c g c c c t c g a a c t t c a c c t c g g c g c g g g t c t t g t a g t t g c c g t c g t c c a a g t g g t c c c a c a g c g g g a g c t t g a a g t g g a g c c g c g c c c a g a a c a t c a a c g g c a g c a g g

1260 100 95 90 85 KFFITREQVYGEPMASKFFD EGFP 100 95 90 85 KFFITREQVYGEPMASKFFD EGFP KFFITREQVYGEPMASKFFD t t g a a g a a g a t g g t g c g c t c c t g g a c g t a g c c t t c g g g c a t g g c g g a c t t g a a g a a g t c g a a c t t c t t c t a c c a c g c g a g g a c c t g c a t c g g a a g c c c g t a c c g c c t g a a c t t c t t c a g c

1320 80 75 70 65 HQKMHDPYRSFCQVGYTLTT EGFP 80 75 70 65 HQKMHDPYRSFCQVGYTLTT EGFP HQKMHDPYRSFCQVGYTLTT t g c t g c t t c a t g t g g t c g g g g t a g c g g c t g a a g c a c t g c a c g c c g t a g g t c a g g g t g g t c a c g a c g a a g t a c a c c a g c c c c a t c g c c g a c t t c g t g a c g t g c g g c a t c c a g t c c c a c c a g

1380 60 55 50 45 VLTPWPVPLKGTTCIFKLTL EGFP 60 55 50 45 VLTPWPVPLKGTTCIFKLTL EGFP VLTPWPVPLKGTTCIFKLTL a c g a g g g t g g g c c a g g g c a c g g g c a g c t t g c c g g t g g t g c a g a t g a a c t t c a g g g t c a g c t g c t c c c a c c c g g t c c c g t g c c c g t c g a a c g g c c a c c a c g t c t a c t t g a a g t c c c a g t c g

1440 40 35 30 25 KGYTADGEGEGSVSFKHGNV EGFP 40 35 30 25 KGYTADGEGEGSVSFKHGNV EGFP C G EGFP-N KGYTADGEGEGSVSFKHGNV t t g c c g t a g g t g g c a t c g c c c t c g c c c t c g c c g g a c a c g c t g a a c t t g t g g c c g t t t a c g a a c g g c a t c c a c c g t a g c g g g a g c g g g a g c g g c c t g t g c g a c t t g a a c a c c g g c a a a t g c

1500 20 15 10 5 DGDLEVLIPVVGTFLEEGKS EGFP 20 15 10 5 DGDLEVLIPVVGTFLEEGKS EGFP T C G C C G T C C A G C T C G A C C A G EGFP-N DGDLEVLIPVVGTFLEEGKS t c g c c g t c c a g c t c g a c c a g g a t g g g c a c c a c c c c g g t g a a c a g c t c c t c g c c c t t g c t c a g c g g c a g g t c g a g c t g g t c c t a c c c g t g g t g g g g c c a c t t g t c g a g g a g c g g g a a c g a g

BmtINheINcoI 1560 1a V 1 M EGFP lox2272 1a V 1 M EGFP Kozak sequence VM a c c a t g g t g g c g c t a g c a t a a c t t c g t a t a a a g t a t c c t a t a c g a a g t t a t t t g c c t t a a t g g t a c c a c c g c g a t c g t a t t g a a g c a t a t t t c a t a g g a t a t g c t t c a a t a a a c g g a a t t

1620 loxP MY c c c a g a a a t t a t c a c t g t t a t t c t t t a g a a t g g t g c a a a g a a t a a c t t c g t a t a a t g t a t g g g t c t t t a a t a g t g a c a a t a a g a a a t c t t a c c a c g t t t c t t a t t g a a g c a t a t t a c a t a

EcoRIEcoRVHindIII 1680 loxP WPRE AIRSYEFDIKLIDNQPLDYK g c t a t a c g a a g t t a t g a a t t c g a t a t c a a g c t t a t c g a t a a t c a a c c t c t g g a t t a c a a a c g a t a t g c t t c a a t a c t t a a g c t a t a g t t c g a a t a g c t a t t a g t t g g a g a c c t a a t g t t t

1740 WPRE A C A A C G A G G A A A A T G C G A T A C WPRE-R ICERLTGILNYVAPFTLCGY a t t t g t g a a a g a t t g a c t g g t a t t c t t a a c t a t g t t g c t c c t t t t a c g c t a t g t g g a t a c t a a a c a c t t t c t a a c t g a c c a t a a g a a t t g a t a c a a c g a g g a a a a t g c g a t a c a c c t a t g

1800 WPRE AALMPLYHAIASRMAFIFSS MLLLPVWLSFSPP g c t g c t t t a a t g c c t t t g t a t c a t g c t a t t g c t t c c c g t a t g g c t t t c a t t t t c t c c t c c c g a c g a a a t t a c g g a a a c a t a g t a c g a t a a c g a a g g g c a t a c c g a a a g t a a a a g a g g a g g

1860 WPRE LYKSWLLSLYEELWPVVRQR CINPGCCLFMRSCGPLSGNV t t g t a t a a a t c c t g g t t g c t g t c t c t t t a t g a g g a g t t g t g g c c c g t t g t c a g g c a a c g t a a c a t a t t t a g g a c c a a c g a c a g a g a a a t a c t c c t c a a c a c c g g g c a a c a g t c c g t t g c a

PflMI 1920 WPRE GVVCTVFADATPTGWGIATT AWCALCLLTQPPLVGALPPP g g c g t g g t g t g c a c t g t g t t t g c t g a c g c a a c c c c c a c t g g t t g g g g c a t t g c c a c c a c c c c g c a c c a c a c g t g a c a c a a a c g a c t g c g t t g g g g g t g a c c a a c c c c g t a a c g g t g g t g g

1980 WPRE CQLLSGTFAFPLPIATAELI VSSFPGLSLSPSLLPRRNSS t g t c a g c t c c t t t c c g g g a c t t t c g c t t t c c c c c t c c c t a t t g c c a c g g c g g a a c t c a t c a c a g t c g a g g a a a g g c c c t g a a a g c g a a a g g g g g a g g g a t a a c g g t g c c g c c t t g a g t a g

2040 WPRE AACLARCWTGARLLGTDNSV PPALPAAGQGLGCWALTIPW g c c g c c t g c c t t g c c c g c t g c t g g a c a g g g g c t c g g c t g t t g g g c a c t g a c a a t t c c g t g c g g c g g a c g g a a c g g g c g a c g a c c t g t c c c c g a g c c g a c a a c c c g t g a c t g t t a a g g c a c

2100 WPRE (in frame with Factor Xa site) *RGKRPQEGINGGPN VLSGKSSSFPWLLAYVATWI CCRGNHRPFLGCSPMLPPGF g t g t t g t c g g g g a a a t c a t c g t c c t t t c c t t g g c t g c t c g c c t a t g t t g c c a c c t g g a t t c a c a a c a g c c c c t t t a g t a g c a g g a a a g g a a c c g a c g a g c g g a t a c a a c g g t g g a c c t a a

2160 WPRE (in frame with Factor Xa site) QAPRGEAVDR 1 RGEI Factor Xa site LRGTSFCYVPSALNPADLPS CAGRPSATSLRPSIQRTFLP c t g c g c g g g a c g t c c t t c t g c t a c g t c c c t t c g g c c c t c a a t c c a g c g g a c c t t c c t t c c g a c g c g c c c t g c a g g a a g a c g a t g c a g g g a a g c c g g g a g t t a g g t c g c c t g g a a g g a a g g

2220 WPRE RGLLPALRPLPRLRLRPQTS AACCRLCGLFRVFAFALRRV c g c g g c c t g c t g c c g g c t c t g c g g c c t c t t c c g c g t c t t c g c c t t c g c c c t c a g a c g a g t g c g c c g g a c g a c g g c c g a g a c g c c g g a g a a g g c g c a g a a g c g g a a g c g g g a g t c t g c t c a

BglIIPaeR7IXhoI 2280 WPRE hGH poly(A) signal RISLWAASPHRYRALLERST GSPFGPPPRIDTERCSRDLR c g g a t c t c c c t t t g g g c c g c c t c c c c g c a t c g a t a c c g a g c g c t g c t c g a g a g a t c t a c g g c c t a g a g g g a a a c c c g g c g g a g g g g c g t a g c t a t g g c t c g c g a c g a g c t c t c t a g a t g c

2340 hGH poly(A) signal GGIPVTPPQCLSWPWKLPLQ VASL* g g t g g c a t c c c t g t g a c c c c t c c c c a g t g c c t c t c c t g g c c c t g g a a g t t g c c a c t c c a g c c a c c g t a g g g a c a c t g g g g a g g g g t c a c g g a g a g g a c c g g g a c c t t c a a c g g t g a g g t c

2400 hGH poly(A) signal CPPALS* t g c c c a c c a g c c t t g t c c t a a t a a a a t t a a g t t g c a t c a t t t t g t c t g a c t a g g t g t c c t a c g g g t g g t c g g a a c a g g a t t a t t t t a a t t c a a c g t a g t a a a a c a g a c t g a t c c a c a g g a

2460 hGH poly(A) signal t c t a t a a t a t t a t g g g g t g g a g g g g g g t g g t a t g g a g c a a g g g g c a a g t t g g g a a g a c a a a g a t a t t a t a a t a c c c c a c c t c c c c c c a c c a t a c c t c g t t c c c c g t t c a a c c c t t c t g t t

2520 hGH poly(A) signal A G A T A A C C C T T G G T T C G A C C hGH-PA-R c c t g t a g g g c c t g c g g g g t c t a t t g g g a a c c a a g c t g g a g t g c a g t g g c a c a a t c t t g g c g g a c a t c c c g g a c g c c c c a g a t a a c c c t t g g t t c g a c c t c a c g t c a c c g t g t t a g a a c c g

2580 hGH poly(A) signal t c a c t g c a a t c t c c g c c t c c t g g g t t c a a g c g a t t c t c c t g c c t c a g c c t c c c g a g t t g t a g t g a c g t t a g a g g c g g a g g a c c c a a g t t c g c t a a g a g g a c g g a g t c g g a g g g c t c a a c a

BlpISphINsiI 2640 hGH poly(A) signal t g g g a t t c c a g g c a t g c a t g a c c a g g c t c a g c t a a t t t t t g t t t t t t t g g t a g a g a c g g g a c c c t a a g g t c c g t a c g t a c t g g t c c g a g t c g a t t a a a a a c a a a a a a a c c a t c t c t g c c c

2700 hGH poly(A) signal g t t t c a c c a t a t t g g c c a g g c t g g t c t c c a a c t c c t a a t c t c a g g t g a t c t a c c c a c c t t c a a a g t g g t a t a a c c g g t c c g a c c a g a g g t t g a g g a t t a g a g t c c a c t a g a t g g g t g g a a

BstXI 2760 hGH poly(A) signal g g c c t c c c a a a t t g c t g g g a t t a c a g g c g t g a a c c a c t g c t c c c t t c c c t g t c c t t c t g a c c g g a g g g t t t a a c g a c c c t a a t g t c c g c a c t t g g t g a c g a g g g a a g g g a c a g g a a g a c t

PmlIBstEII 2820 AAV2 ITR AAV2 ITR t t t t g t a g g t a a c c a c g t g c g g a c c g a g c g g c c g c a g g a a c c c c t a g t g a t g g a g t t g g c a a a a c a t c c a t t g g t g c a c g c c t g g c t c g c c g g c g t c c t t g g g g a t c a c t a c c t c a a c c g

2880 AAV2 ITR AAV2 ITR c a c t c c c t c t c t g c g c g c t c g c t c g c t c a c t g a g g c c g g g c g a c c a a a g g t c g c c c g a c g g t g a g g g a g a g a c g c g c g a g c g a g c g a g t g a c t c c g g c c c g c t g g t t t c c a g c g g g c t g c

2940 AAV2 ITR AAV2 ITR c c c g g g c t t t g c c c g g g c g g c c t c a g t g a g c g a g c g a g c g c g c a g c t g c c t g c a g g g g c g g g g c c c g a a a c g g g c c c g c c g g a g t c a c t c g c t c g c t c g c g c g t c g a c g g a c g t c c c c g c

3000 c c t g a t g c g g t a t t t t c t c c t t a c g c a t c t g t g c g g t a t t t c a c a c c g c a t a c g t c a a a g g g a c t a c g c c a t a a a a g a g g a a t g c g t a g a c a c g c c a t a a a g t g t g g c g t a t g c a g t t t c

3060 f1 ori c a a c c a t a g t a c g c g c c c 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 g t t g g t a t c a t g c g c g g g 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

3120 f1 ori G A G G A A A G C G A A A G A A G G G A F1ori-R a g c g t g a c c g c t a c a c t t g c c a g c g c c t 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 c g c a c t g g c g a t g t g a a c g g t c g c g g a 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

3180 f1 ori t t t c t c g c c a c g t t c g c c 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 a a a g a g c g g t g c a a g c g g 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

3240 f1 ori t t c c g a t t t a g t g c t t t a 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 t g g g t g a t g g t t c a a a g g c t a a a t c a c g a a a t 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 a c c c a c t a c c a a g t

DraIII 3300 f1 ori c g t a g t g g g c c a t c g c c c 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 g c a t c a c c c g g t a g c g g 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

3360 f1 ori G T G G A C T C T T G T T C C A A A C T G G F1ori-F t t t a a t a g t g g a c t c t t g t t c c a a a c t g g a a c a a c a c t c a a c t c t a t c t c g g g c t a t t c t a a a t t a t c a c c t g a g a a c a a g g t t t g a c c t t g t t g t g a g t t g a g a t a g a g c c c g a t a a g a

PsiI 3420 f1 ori t t t g a t t t a t a a g g g a t t t t g c c g a t t t c g g t 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 a a a c t a a a t a t t c c c t a a a a c g g c t a a a g c c a 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

3480 f1 ori c a a a a a t t t a a c g c g a a t t t t a a c a a a a t a t t a a c g t t t a c a a t t t t a t g g t g c a c t c t c g t t t t t a a a t t g c g c t t a a a a t t g t t t t a t a a t t g c a a a t g t t a a a a t a c c a c g t g a g a g

3540 A T G T T A G A C G A G A C T A C G G C pRS-marker a g t a c a a t c t g c t c t g a t g c c g c a t a g t t a a g c c a g c c c c g a c a c c c g c c a a c a c c c g c t t c a t g t t a g a c g a g a c t a c g g c g t a t c a a t t c g g t c g g g g c t g t g g g c g g t t g t g g g c g a

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

3660 C C G G G A G C T G C A T G T G T C A G A G G pGEX 3' t c c g g g a g c t g c a t g t g t c a g a g g t t t t c a c c g t c a t c a c c g a a a c g c g c g a g a c g a a a g a g g c c c t c g a c g t a c a c a g t c t c c a a a a g t g g c a g t a g t g g c t t t g c g c g c t c t g c t t t c

3720 C G G A G C A C T A T G C G G A T A A pBRforEco g g c c t c g t g a t a c g c c t a t t t t t a t a g g t t a a t g t c a t g a t a a t a a t g g t t t c t t a g a c g c c g g a g c a c t a t g c g g a t a a a a a t a t c c a a t t a c a g t a c t a t t a t t a c c a a a g a a t c t g c

3780 AmpR promoter t c 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 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 a g 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 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

3840 AmpR promoter 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 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 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 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

3900 1 5 10 15 signal sequence MSIQHFRVALIPFFAA AmpR promoter AmpR MSIQHFRVALIPFFAA 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 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 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 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

3960 20 signal sequence FCLPVFA 25 30 35 HPETLVKVKDAED AmpR FCLPVFAHPETLVKVKDAED 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 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 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 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

4020 40 45 50 55 QLGARVGYIELDLNSGKILE AmpR QLGARVGYIELDLNSGKILE 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 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 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 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

4080 60 65 70 75 SFRPEERFPMMSTFKVLLCG AmpR C G A T A C A C C G Amp-R SFRPEERFPMMSTFKVLLCG 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 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 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 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

4140 80 85 90 95 AVLSRIDAGQEQLGRRIHYS AmpR C G C C A T A A T A Amp-R AVLSRIDAGQEQLGRRIHYS 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 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 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 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

ScaI 4200 100 105 110 115 QNDLVEYSPVTEKHLTDGMT AmpR QNDLVEYSPVTEKHLTDGMT 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 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 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 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

4260 120 125 130 135 VRELCSAAITMSDNTAANLL AmpR VRELCSAAITMSDNTAANLL 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 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 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 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

PvuI 4320 140 145 150 155 LTTIGGPKELTAFLHNMGDH AmpR LTTIGGPKELTAFLHNMGDH 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 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 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 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

4380 160 165 170 175 VTRLDRWEPELNEAIPNDER AmpR VTRLDRWEPELNEAIPNDER 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 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 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 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

4440 180 185 190 195 DTTMPVAMATTLRKLLTGEL AmpR DTTMPVAMATTLRKLLTGEL 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 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 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 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

AseI 4500 200 205 210 215 LTLASRQQLIDWMEADKVAG AmpR LTLASRQQLIDWMEADKVAG 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 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 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 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

4560 220 225 230 235 PLLRSALPAGWFIADKSGAG AmpR PLLRSALPAGWFIADKSGAG 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 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 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 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

4620 240 245 250 255 ERGSRGIIAALGPDGKPSRI AmpR ERGSRGIIAALGPDGKPSRI 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 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 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 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

4680 260 265 270 275 VVIYTTGSQATMDERNRQIA AmpR VVIYTTGSQATMDERNRQIA 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 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 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 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

4740 280 285 EIGASLIKHW* AmpR EIGASLIKHW* 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 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 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 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

4800 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 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 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 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

4860 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 g t t c c a c t g a g c g t c a g a c c c c 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 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

4920 ori 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 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 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 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

4980 ori 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 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 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 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

5040 ori 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 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 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 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

5100 ori 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 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 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 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

AlwNI 5160 ori 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 a a g t c g t g t c t t a c c g g g t t g 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 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

5220 ori 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 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 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 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

5280 ori 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 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 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 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

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

5400 ori G G G A A A C G C C T G G T A T C T T T pBR322ori-F 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 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 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 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

5460 ori 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 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 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 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

5520 ori 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 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 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 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

PciI 3ʹ 5ʹ 5533 t t t g c t c a c a t g t a a a c g a g t g t a c a

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.