Addgene pAAV2.1-CMV-BD lacZ_3' Cer-bGHpA Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pAAV2.1-CMV-BD lacZ_3' Cer-bGHpA Sequencing Result


Map View

BspQI - SapI (4683) AflIII - PciI (4566) pBR322ori-F (4411 .. 4430) AlwNI (4157) ScaI (3197) Amp-R (3109 .. 3128) XmnI (3078) PsiI (2663) F1ori-F (2602 .. 2623) DraIII (2538) NaeI (2432) NgoMIV (2430) F1ori-R (2392 .. 2411) M13/pUC Reverse (186 .. 208) lac operator M13 Reverse (205 .. 221) M13 rev StuI (247) EcoNI (252) XbaI (373) SpeI (399) NdeI (634) SnaBI (740) BtgI - NcoI - StyI (760) CMV-F (919 .. 939) Eco53kI (966) SacI (968) T7 (1013 .. 1032) T7 promoter BfuAI - BspMI - PaqCI (1082) PfoI * (1320) EXFP-R (1346 .. 1365) PflFI - Tth111I (1487) Bpu10I (1643) BlpI (1661) EGFP-C (1693 .. 1714) BsrGI (1749) SalI (1760) AccI (1761) HincII (1762) bGH poly(A) signal BbsI (1955) SphI (1966) EagI - NotI (1992) M13 Forward (2147 .. 2164) M13/pUC Forward (2156 .. 2178) pAAV2.1-CMV-BD lacZ_3' Cer-bGHpA 4691 bp

Sequence View

5ʹ 3ʹ 60 a g c g c c c a a t a c g c a a a c c g c 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 t c g c g g g t t a t g c g t t t g g c g 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

120 CAP binding site a c g a c a g g t t t c c c g a c t g g a 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 g c t g t c c a a a g g g c t g a c c t 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

180 -35 -10 CAP binding site lac promoter t c a c t c a t t a g g c a c c c c a g g 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 a g t g a g t a a t c c g t g g g g t c 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

240 lac operator M13 rev A G C G G A T A A C A A T T T C 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 t t g t g a g c g g a t a a c a a t t t c 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 g a t t t a a a c a c t c g c c t a t t g t t a a a 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 c t a a a t

EcoNIStuI 300 a t t a a g g c c t t a a t t a g 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 a a a g c c c t a a t t c c g g a a t t a a t c 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 t t t c g g g

360 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 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 a 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 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 t c c c

SpeIXbaI 420 CMV enhancer g t t c c t g c g g c c t c t a g a a a g c t t g a c a t t g a t t a t t g a c t a g t t a t t a a t a g t a a t c a a c a a g g a c g c c g g a g a t c t t t c g a a c t g t a a c t a a t a a c t g a t c a a t a a t t a t c a t t a g t t

480 CMV enhancer t t a c g g g g t c a t t a g t t c a t a g c c c a t a t a t g g a g t t c c g c g t t a c a t a a c t t a c g g t a a a a t g c c c c a g t a a t c a a g t a t c g g g t a t a t a c c t c a a g g c g c a a t g t a t t g a a t g c c a t t

540 CMV enhancer a t g g c c c g c c t g g c t g a c c g c c c a a c g a c c c c c g c c c a t t g a c g t c a a t a a t g a c g t a t g t a c c g g g c g g a c c g a c t g g c g g g t t g c t g g g g g c g g g t a a c t g c a g t t a t t a c t g c a t a c

600 CMV enhancer t t c c c a t a g t a a c g c c a a t a g g g a c t t t c c a t t g a c g t c a a t g g g t g g a g t a t t t a c g g t a a g g g t a t c a t t g c g g t t a t c c c t g a a a g g t a a c t g c a g t t a c c c a c c t c a t a a a t g c c a

NdeI 660 CMV enhancer a a a c t g c c c a c t t g g c a g t a c a t c a a g t g t a t c a 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 t t g a c g g g t g a a c c g t c a t g t a g t t c a c a t a g t 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

720 CMV enhancer 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 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 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 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

NcoIStyIBtgISnaBI 780 CMV enhancer CMV promoter 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 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 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 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

840 CMV promoter 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 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 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 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

900 CMV promoter 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 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 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 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

960 CMV promoter C G C A A A T G G G C G G T A G G C G T G CMV-F 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 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 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 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

Eco53kISacI 1020 CMV promoter T7 promoter T A A T A C G A T7 g c a g a g c t c t c t g g c t a a c t a g a g a a c c c a c t g c t t a c t g g c t t a t c g a a a t t a a t a c g a c g t c t c g a g a g a c c g a t t g a t c t c t t g g g t g a c g a a t g a c c g a a t a g c t t t a a t t a t g c t

1080 T7 promoter C T C A C T A T A G G G T7 c t c a c t a t a g g g a g a c c c a a g c t g g c t a g t t a a g c t t g g a t c c c a t c t g a c c a c c t g c g a g a g t g a t a t c c c t c t g g g t t c g a c c g a t c a a t t c g a a c c t a g g g t a g a c t g g t g g a c g c t

BspMIPaqCIBfuAI 1140 a t t t t t g c a t c c t g c t g t t t a a t c t g c g t t g g t t t a a c c g c c t g t c t g g c t t t t t t t c a c t a a a a a c g t a g g a c g a c a a a t t a g a c g c a a c c a a a t t g g c g g a c a g a c c g a a a a a a a g t g

1200 MHWIPTSLLSSTGKL t g a t g t g a t c g c c t t g a t g c a c t g g a t c c c a a c g a g t c t t t t g t c a t c t a c a g g t a a g c t a c t a c a c t a g c g g a a c t a c g t g a c c t a g g g t t g c t c a g a a a a c a g t a g a t g t c c a t t c g a

1260 PVPWPTLVTTLTWGVQCFAR g 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 g g g g c g t g c a g t g c t t c g c 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 c c c c g c a c g t c a c g a a g c g g g c

1320 YPDHMKQHDFFKSAMPEGYV c 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 g 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

PfoI* 1380 C T G C T G C C G T T G A T G T T C T G EXFP-R QERTIFFKDDGNYKTRAEVK c 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

1440 FEGDTLVNRIELKGIDFKED g 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

Tth111IPflFI 1500 GNILGHKLEYNAISDNVYIT c 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 g c c a t c a g c g a c a a c g t c t a t a t c a c 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 c g g t a g t c g c t g t t g c a g a t a t a g t g

1560 155 160 165 170 DKQKNGIKANFKIRHNIED VC155 ADKQKNGIKANFKIRHNIED c 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 c c 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 g 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 g g 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

1620 175 180 185 190 GSVQLADHYQQNTPIGDGPV VC155 GSVQLADHYQQNTPIGDGPV c 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

BlpIBpu10I 1680 195 200 205 210 LLPDNHYLSTQSKLSKDPNE VC155 LLPDNHYLSTQSKLSKDPNE g 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 a a g c t g a g c a a a g a c c c c a a c g a c 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 t t c g a c t c g t t t c t g g g g t t g c t

1740 215 220 225 230 KRDHMVLLEFVTAAGITLGM VC155 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 g 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 c 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

SalIAccIHincIIBsrGI 1800 235 DELYK * VC155 bGH poly(A) signal DELYK* g g a c g a g c t g t a c a a g t a a g t c g a c c t g t g c c t t c t a g t t g c c a g c c a t c t g t t g t t t g c c c t g c t c g a c a t g t t c a t t c a g c t g g a c a c g g a a g a t c a a c g g t c g g t a g a c a a c a a a c g

1860 bGH poly(A) signal c c c t c c c c c g t g c c t t c c t t g a c c c t g g a a g g t g c c a c t c c c a c t g t c c t t t c c t a a t a a g g g a g g g g g c a c g g a a g g a a c t g g g a c c t t c c a c g g t g a g g g t g a c a g g a a a g g a t t a t t

1920 bGH poly(A) signal a a t g a g g a a a t t g c a t c g c a t t g t c t g a g t a g g t g t c a t t c t a t t c t g g g g g g t g g g g t g t t a c t c c t t t a a c g t a g c g t a a c a g a c t c a t c c a c a g t a a g a t a a g a c c c c c c a c c c c a c

SphIBbsI 1980 bGH poly(A) signal g g g c a g g a c a g c a a g g t g g a g g a t t g g g a a g a c a a t a g c a g g c a t g c t g g g g a t g c g g t g c c c g t c c t g t c g t t c c a c c t c c t a a c c c t t c t g t t a t c g t c c g t a c g a c c c c t a c g c c a c

EagINotI 2040 bGH poly(A) signal AAV2 ITR g g c t c t a t g g 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 c a c t c c c t c t c t g c g c g c c g a g a t a c c 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 g t g a g g g a g a g a c g c g c

2100 AAV2 ITR 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 c c c g g g c t t t g c c c g g g 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 g g g c c c g a a a c g g g c c c

2160 AAV2 ITR M13 fwd T G A C C G G C A G C A A A M13 Forward G C A A A M13/pUC Forward 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 c t t a a t t a a c c t a a t t c a c t g g c c g t c g t t t 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 g a a t t a a t t g g a t t a a g t g a c c g g c a g c a a a

2220 M13 fwd A T G T M13 Forward A T G T T G C A G C A C T G A C C C M13/pUC Forward 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 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 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 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

2280 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 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 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 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

2340 f1 ori 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 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 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 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

2400 f1 ori G A G G A A A G C F1ori-R 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 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 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 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

NgoMIVNaeI 2460 f1 ori G A A A G A A G G G A F1ori-R 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 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 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 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

2520 f1 ori 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 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 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 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

DraIII 2580 f1 ori 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 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 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 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

2640 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 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 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 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 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

PsiI 2700 f1 ori 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 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 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 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

2760 f1 ori 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 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 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 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

2820 AmpR promoter 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 c 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 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

2880 AmpR promoter 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 a a 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 t t

2940 1 5 10 15 signal sequence MSIQHFRVALIPFFAAF AmpR promoter AmpR MSIQHFRVALIPFFAAF 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 a a

3000 20 signal sequence CLPVFA 25 30 35 HPETLVKVKDAEDQ AmpR CLPVFAHPETLVKVKDAEDQ 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 c 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 g t

3060 40 45 50 55 LGARVGYIELDLNSGKILES AmpR LGARVGYIELDLNSGKILES 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 a g 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 t c

XmnI 3120 60 65 70 75 FRPEERFPMMSTFKVLLCGA AmpR C G A T A C A C C G C G Amp-R FRPEERFPMMSTFKVLLCGA 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 g 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 c g

3180 80 85 90 95 VLSRIDAGQEQLGRRIHYSQ AmpR C C A T A A T A Amp-R VLSRIDAGQEQLGRRIHYSQ 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 a 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 g t

ScaI 3240 100 105 110 115 NDLVEYSPVTEKHLTDGMTV AmpR NDLVEYSPVTEKHLTDGMTV 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 c a

3300 120 125 130 135 RELCSAAITMSDNTAANLLL AmpR RELCSAAITMSDNTAANLLL 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 t 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 g a

3360 140 145 150 155 TTIGGPKELTAFLHNMGDHV AmpR TTIGGPKELTAFLHNMGDHV 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 t 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 c a

3420 160 165 170 175 TRLDRWEPELNEAIPNDERD AmpR TRLDRWEPELNEAIPNDERD 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 g 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 c t

3480 180 185 190 195 TTMPVAMATTLRKLLTGELL AmpR TTMPVAMATTLRKLLTGELL 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 g a

3540 200 205 210 215 TLASRQQLIDWMEADKVAGP AmpR TLASRQQLIDWMEADKVAGP 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 c c 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 g g

3600 220 225 230 235 LLRSALPAGWFIADKSGAGE AmpR LLRSALPAGWFIADKSGAGE 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 a 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 c t

3660 240 245 250 255 RGSRGIIAALGPDGKPSRIV AmpR RGSRGIIAALGPDGKPSRIV 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 g 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 c a

3720 260 265 270 275 VIYTTGSQATMDERNRQIAE AmpR VIYTTGSQATMDERNRQIAE 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 g 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 c t

3780 280 285 IGASLIKHW* AmpR IGASLIKHW* 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 g a

3840 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 c t

3900 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 g 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 c a

3960 ori 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 g t

4020 ori 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 c 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 g a

4080 ori 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 t 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 a t

4140 ori 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 c 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 g a

AlwNI 4200 ori 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 t c 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 a g

4260 ori 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 c a 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 g t

4320 ori 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 a 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 c t

4380 ori 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 g g 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 c c

4440 ori G G G A A A C G C C T G G T A T C T T T pBR322ori-F 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 g t 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 c a

4500 ori 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 a g 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 t c

4560 ori 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 t 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 a a

AflIIIPciI 4620 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 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 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 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

4680 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 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 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 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

BspQISapI 3ʹ 5ʹ 4691 g g a a g c g g a a g c c t t c g c c t t c

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.