Addgene AAV-FLEX-CAG-CyRFP1 - Sequence Analyzer Skip to main content
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Sequence Analyzer: AAV-FLEX-CAG-CyRFP1


Map View

MfeI (5330) HpaI (5321) SV40pA-R (5265 .. 5284) EBV-rev (5211 .. 5230) EagI - NotI (5178) WPRE-R (4622 .. 4642) HindIII (4557) EcoRV (4553) EcoRI (4545) BmtI (4425) NheI (4421) AleI (4406) BclI * (4380) Bsu36I (4138) BstBI (4106) SacI (4055) Eco53kI (4053) BmgBI (3882) BfuAI - BspMI - PaqCI (3876) PshAI (3776) BsrGI (3708) AscI (3690) BspEI (3565) XbaI (3553) BamHI (3547) pCAG-F (3495 .. 3514) pCAGGS-5 (3456 .. 3478) ApaI (3382) PspOMI (3378) AfeI (3313) BspQI - SapI (5) AflIII - PciI (121) NspI (125) pBR322ori-F (262 .. 281) AlwNI (537) ScaI (1494) Amp-R (1564 .. 1583) F1ori-F (2069 .. 2090) F1ori-R (2281 .. 2300) NdeI (2767) AAV-FLEX-CAG-CyRFP1 5667 bp

Sequence View

BspQISapI 60 c t t c c g c t t c c t c g c t c a c t g a c t c g c t g c g c t c g g t c g t t c g g c t g c g g c g a g c g g t a t g a a g g c g a a g g a g c g a g t g a c t g a g c g a c g c g a g c c a g c a a g c c g a c g c c g c t c g c c a t a

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

AflIIIPciINspI 180 a c a t g t g a g c a a a a g g c c a g c a a a a g g c c a g g a a c c g t a a a a a g g c c g c g t t g c t g g c g t t g t a c a c t c g t t t t c c g g t c g t t t t c c g g t c c t t g g c a t t t t t c c g g c g c a a c g a c c g c a

240 ori t t t t c c a t a g g c t c c g c c c c c c t g a c g a g c a t c a c a a a a a t c g a c g c t c a a g t c a g a g g t a a a a g g t a t c c g a g g c g g g g g g a c t g c t c g t a g t g t t t t t a g c t g c g a g t t c a g t c t c c a

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

360 ori g c t c t c c t g t t c c g a c c c t g c c g c t t a c c g g a t a c c t g t c c g c c t t t c t c c c t t c g g g a a c g a g a g g a c a a g g c t g g g a c g g c g a a t g g c c t a t g g a c a g g c g g a a a g a g g g a a g c c c t t

420 ori g c g t g g c g c t t t c t c a t a g c t c a c g c t g t a g g t a t c t c a g t t c g g t g t a g g t c g t t c g c t c g c a c c g c g a a a g a g t a t c g a g t g c g a c a t c c a t a g a g t c a a g c c a c a t c c a g c a a g c g a

480 ori c c a a g c t g g g c t g t g t g c a c g a a c c c c c c g t t c a g c c c g a c c g c t g c g c c t t a t c c g g t a g g t t c g a c c c g a c a c a c g t g c t t g g g g g g c a a g t c g g g c t g g c g a c g c g g a a t a g g c c a t

AlwNI 540 ori a c t a t c g t c t t g a g t c c a a c c c g g t a a g a c a c g a c t t a t c g c c a c t g g c a g c a g c c a c t g t g a t a g c a g a a c t c a g g t t g g g c c a t t c t g t g c t g a a t a g c g g t g a c c g t c g t c g g t g a c

600 ori g t a a c a g g a t t a g c a g a g c g a g g t a t g t a g g c g g t g c t a c a g a g t t c t t g a a g t g g t g g c c a t t g t c c t a a t c g t c t c g c t c c a t a c a t c c g c c a c g a t g t c t c a a g a a c t t c a c c a c c g

660 ori c t a a c t a c g g c t a c a c t a g a a g a a c a g t a t t t g g t a t c t g c g c t c t g c t g a a g c c a g t t a g a t t g a t g c c g a t g t g a t c t t c t t g t c a t a a a c c a t a g a c g c g a g a c g a c t t c g g t c a a t

720 ori c c t t c g g a a a a a g a g t t g g t a g c t c t t g a t c c g g c a a a c a a a c c a c c g c t g g t a g c g g t g g g a a g c c t t t t t c t c a a c c a t c g a g a a c t a g g c c g t t t g t t t g g t g g c g a c c a t c g c c a c

780 ori g t t t t t t t g t t t g c a a g c a g c a g a t t a c g c g c a g a a a a a a a g g a t c t c a a g a a g a t c c t t c a a a a a a a c a a a c g t t c g t c g t c t a a t g c g c g t c t t t t t t t c c t a g a g t t c t t c t a g g a a

840 t g a t c t t t t c t a c g g g g t c t g a c g c t c a g t g g a a c g a a a a c t c a c g t t a a g g g a t t t t g g a c t a g a a a a g a t g c c c c a g a c t g c g a g t c a c c t t g c t t t t g a g t g c a a t t c c c t a a a a c c

900 t c a t g a g a t t a t c a a a a a g g a t c t t c a c c t a g a t c c t t t t a a a t t a a a a a t g a a g t t t t a a g t a c t c t a a t a g t t t t t c c t a g a a g t g g a t c t a g g a a a a t t t a a t t t t t a c t t c a a a a t

960 285 *WHKILS AmpR *WHKILS a a t c a a t c t a a a g t a t a t a t g a g t a a a c t t g g t c t g a c a g t t a c c a a t g c t t a a t c a g t g t t a g t t a g a t t t c a t a t a t a c t c a t t t g a a c c a g a c t g t c a a t g g t t a c g a a t t a g t c a c

1020 280 275 270 265 AGIEAIQRNREDMTAQSGTT AmpR AGIEAIQRNREDMTAQSGTT a g g c a c c t a t c t c a g c g a t c t g t c t a t t t c g t t c a t c c a t a g t t g c c t g a c t c c c c g t c g t c c g t g g a t a g a g t c g c t a g a c a g a t a a a g c a a g t a g g t a t c a a c g g a c t g a g g g g c a g c

1080 260 255 250 245 YIVVIRSPKGDPGLAAIIGR AmpR YIVVIRSPKGDPGLAAIIGR t g t a g a t a a c t a c g a t a c g g g a g g g c t t a c c a t c t g g c c c c a g t g c t g c a a t g a t a c c g c a c a t c t a t t g a t g c t a t g c c c t c c c g a a t g g t a g a c c g g g g t c a c g a c g t t a c t a t g g c g

1140 240 235 230 225 SGREGAGSKDAIFWGAPLAS AmpR SGREGAGSKDAIFWGAPLAS g a g a c c c a c g c t c a c c g g c t c c a g a t t t a t c a g c a a t a a a c c a g c c a g c c g g a a g g g c c g c t c t g g g t g c g a g t g g c c g a g g t c t a a a t a g t c g t t a t t t g g t c g g t c g g c c t t c c c g g c

1200 220 215 210 205 RLLPGAVKDAEMWDILQQRS AmpR RLLPGAVKDAEMWDILQQRS a g c g c a g a a g t g g t c c t g c a a c t t t a t c c g c c t c c a t c c a g t c t a t t a a t t g t t g c c g g g t c g c g t c t t c a c c a g g a c g t t g a a a t a g g c g g a g g t a g g t c a g a t a a t t a a c a a c g g c c c

1260 200 195 190 185 ALTLLEGTLLKRLTTAMAVP AmpR ALTLLEGTLLKRLTTAMAVP a a g c t a g a g t a a g t a g t t c g c c a g t t a a t a g t t t g c g c a a c g t t g t t g c c a t t g c t a c a g t t c g a t c t c a t t c a t c a a g c g g t c a a t t a t c a a a c g c g t t g c a a c a a c g g t a a c g a t g t c

1320 180 175 170 165 MTTDREDNPIAENLEPEWRD AmpR MTTDREDNPIAENLEPEWRD g c a t c g t g g t g t c a c g c t c g t c g t t t g g t a t g g c t t c a t t c a g c t c c g g t t c c c a a c g a t c g t a g c a c c a c a g t g c g a g c a g c a a a c c a t a c c g a a g t a a g t c g a g g c c a a g g g t t g c t a

1380 160 155 150 145 LRTVHDGMNHLFATLEKPGG AmpR LRTVHDGMNHLFATLEKPGG c a a g g c g a g t t a c a t g a t c c c c c a t g t t g t g c a a a a a a g c g g t t a g c t c c t t c g g t c c t c g t t c c g c t c a a t g t a c t a g g g g g t a c a a c a c g t t t t t t c g c c a a t c g a g g a a g c c a g g a g

1440 140 135 130 125 ITTLLLNAATNDSMTIAASC AmpR ITTLLLNAATNDSMTIAASC c g a t c g t t g t c a g a a g t a a g t t g g c c g c a g t g t t a t c a c t c a t g g t t a t g g c a g c a c t g c g c t a g c a a c a g t c t t c a t t c a a c c g g c g t c a c a a t a g t g a g t a c c a a t a c c g t c g t g a c g

ScaI 1500 120 115 110 105 LERVTMGDTLHKETVPSYEV AmpR LERVTMGDTLHKETVPSYEV a t a a t t c t c t t a c t g t c a t g c c a t c c g t a a g a t g c t t t t c t g t g a c t g g t g a g t a c t c a a t a t t a a g a g a a t g a c a g t a c g g t a g g c a t t c t a c g a a a a g a c a c t g a c c a c t c a t g a g t t

1560 100 95 90 85 LDNQSYHIRRGLQEQGADIR AmpR LDNQSYHIRRGLQEQGADIR c c a a g t c a t t c t g a g a a t a g t g t a t g c g g c g a c c g a g t t g c t c t t g c c c g g c g t c a a t a c g g t t c a g t a a g a c t c t t a t c a c a t a c g c c g c t g g c t c a a c g a g a a c g g g c c g c a g t t a t g

1620 80 75 70 65 SLVAGCLLVKFTSMMPFREE AmpR A T A A T A C C G C G C C A C A T A G C Amp-R SLVAGCLLVKFTSMMPFREE g g g a t a a t a c c g c g c c a c a t a g c a g a a c t t t a a a a g t g c t c a t c a t t g g a a a a c g t t c t t c c c t a t t a t g g c g c g g t g t a t c g t c t t g a a a t t t t c a c g a g t a g t a a c c t t t t g c a a g a a

1680 60 55 50 45 PRFSELIKGSNLDLEIYGVR AmpR PRFSELIKGSNLDLEIYGVR c g g g g c g a a a a c t c t c a a g g a t c t t a c c g c t g t t g a g a t c c a g t t c g a t g t a a c c c a c t c g c c c c g c t t t t g a g a g t t c c t a g a a t g g c g a c a a c t c t a g g t c a a g c t a c a t t g g g t g a g

1740 40 35 30 25 AGLQDEADKVKVLTEPH signal sequence AFV AmpR AGLQDEADKVKVLTEPHAFV g t g c a c c c a a c t g a t c t t c a g c a t c t t t t a c t t t c a c c a g c g t t t c t g g g t g a g c a a a a a c a c g t g g g t t g a c t a g a a g t c g t a g a a a a t g a a a g t g g t c g c a a a g a c c c a c t c g t t t t t

1800 20 15 10 5 1 signal sequence PLCFAAFFPILAVRFHQISM AmpR PLCFAAFFPILAVRFHQISM c a g g a a g g c a a a a t g c c g c a a a a a a g g g a a t a a g g g c g a c a c g g a a a t g t t g a a t a c t c a g t c c t t c c g t t t t a c g g c g t t t t t t c c c t t a t t c c c g c t g t g c c t t t a c a a c t t a t g a g t

1860 AmpR AmpR promoter t a c t c t t c c t t t t t c a a t a t t a t t g a a g c a t t t a t c a g g g t t a t t g t c t c a t g a g c g g a t a t g a g a a g g a a a a a g t t a t a a t a a c t t c g t a a a t a g t c c c a a t a a c a g a g t a c t c g c c t a

1920 AmpR promoter a c a t a t t t g a a t g t a t t t a g a a a a a t a a a c a a a t a g g g g t t c c g c g c a c a t t t c c c c g a a t g t a t a a a c t t a c a t a a a t c t t t t t a t t t g t t t a t c c c c a a g g c g c g t g t a a a g g g g c t t

1980 f1 ori a a g t g c c a c c t a a a t t g t a a g c g t t a a t a t t t t g t t a a a a t t c g c g t t a a a t t t t t g t t a t t c a c g g t g g a t t t a a c a t t c g c a a t t a t a a a a c a a t t t t a a g c g c a a t t t a a a a a c a a t

2040 f1 ori a a t c a g c t c a t t t t t t a a c c a a t a g g c c g a a a t c g g c a a a a t c c c t t a t a a a t c a a a a g a t t a g t c g a g t a a a a a a t t g g t t a t c c g g c t t t a g c c g t t t t a g g g a a t a t t t a g t t t t c t

2100 f1 ori G G T C A A A C C T T G T T C T C A G G T G F1ori-F a t a g a c c g a g a t a g g g t t g a g t g t t g t t c c a g t t t g g a a c a a g a g t c c a c t a t t a a a g a a t a t c t g g c t c t a t c c c a a c t c a c a a c a a g g t c a a a c c t t g t t c t c a g g t g a t a a t t t c t t

2160 f1 ori c g t g g a c t c c a a c g t c a a a g g g c g a a a a a c c g t c t a t c a g g g c g a t g g c c c a c t a c g t g a g c a c c t g a g g t t g c a g t t t c c c g c t t t t t g g c a g a t a g t c c c g c t a c c g g g t g a t g c a c t

2220 f1 ori a c c a t c a c c c t a a t c a a g t t t t t t g g g g t c g a g g t g c c g t a a a g c a c t a a a t c g g a a c c c t g g t a g t g g g a t t a g t t c a a a a a a c c c c a g c t c c a c g g c a t t t c g t g a t t t a g c c t t g g g

2280 f1 ori t a a a g g g a g c c c c c g a t t t a g a g c t t g a c g g g g a a a g c c g g c g a a c g t g g c g a g a a a g g a a t t t c c c t c g g g g g c t a a a t c t c g a a c t g c c c c t t t c g g c c g c t t g c a c c g c t c t t t c c t

2340 f1 ori A G G G A A G A A A G C G A A A G G A G F1ori-R a g g g a a g a a a g c g a a a g g a g c g g g c g c t a g g g c g c t g g c a a g t g t a g c g g t c a c g c t g c g t c c c t t c t t t c g c t t t c c t c g c c c g c g a t c c c g c g a c c g t t c a c a t c g c c a g t g c g a c g c

2400 f1 ori c g t a a c c a c c a c a c c c g c c g c g c t t a a t g c g c c g c t a c a g g g c g c g t c c c a t t c g c c a t t g c a t t g g t g g t g t g g g c g g c g c g a a t t a c g c g g c g a t g t c c c g c g c a g g g t a a g c g g t a a

2460 AAV2 ITR c a g g c t g c g c a a c t g t t g g g a a g g g c g a t c g g t g c g g g c c t c t t c g c t a t t a c g c c a g c t g t c c g a c g c g t t g a c a a c c c t t c c c g c t a g c c a c g c c c g g a g a a g c g a t a a t g c g g t c g a

2520 AAV2 ITR 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 g g g c g t c g g g c g a c c t t t g g 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 c c c g c a g c c c g c t g g a a a c c

2580 AAV2 ITR 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 a g 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 t c

2640 AAV2 ITR g g g t t c c t t g t a g t t a a t g a t t a a c c c g c c a t g c t a c t t a t c t a c g t a g c c a t g c t c t a g c c c a a g g a a c a t c a a t t a c t a a t t g g g c g g t a c g a t g a a t a g a t g c a t c g g t a c g a g a t c

2700 g a a g a g t a 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 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 c t t c t c a t 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 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

2760 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 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 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 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

NdeI 2820 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 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 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 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

2880 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 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 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 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

2940 chicken β- actin promoter t c a t c g c t a t t a c c a t g g t c g a g g t g a g c c c c a c g t t c t g c t t c a c t c t c c c c a t c t c c c a g t a g c g a t a a t g g t a c c a g c t c c a c t c g g g g t g c a a g a c g a a g t g a g a g g g g t a g a g g g

3000 chicken β- actin promoter c c c c c t c c c c a c c c c c a a t t t t g t a t t t a t t t a t t t t t t a a t t a t t t t g t g c a g c g a t g g g g g g g a g g g g t g g g g g t t a a a a c a t a a a t a a a t a a a a a a t t a a t a a a a c a c g t c g c t a c c

3060 chicken β- actin promoter g g g c g g g g g g g g g g g g g g g g c g c g c g c c a g g c g g g g c g g g g c g g g g c g a g g g g c g g g g c g c c c g c c c c c c c c c c c c c c c c g c g c g c g g t c c g c c c c g c c c c g c c c c g c t c c c c g c c c c g c

3120 chicken β- actin promoter g g g c g a g g c g g a g a g g t g c g g c g g c a g c c a a t c a g a g c g g c g c g c t c c g a a a g t t t c c t t c c c g c t c c g c c t c t c c a c g c c g c c g t c g g t t a g t c t c g c c g c g c g a g g c t t t c a a a g g a a

3180 chicken β- actin promoter t t a t g g c g a g g c g g c g g c g g c g g c g g c c c t a t a a a a a g c g a a g c g c g c g g c g g g c g g g a g a a t a c c g c t c c g c c g c c g c c g c c g c c g g g a t a t t t t t c g c t t c g c g c g c c g c c c g c c c t c

3240 t c g c t g c g a c g c t g c c t t c g c c c c g t g c c c c g c t c c g c c g c c g c c t c g c g c c g c c c g c c c a g c g a c g c t g c g a c g g a a g c g g g g c a c g g g g c g a g g c g g c g g c g g a g c g c g g c g g g c g g g

3300 c g g c t c t g a c t g a c c g c g t t a c t c c c a c a g g t g a g c g g g c g g g a c g g c c c t t c t c c t c c g g c c g a g a c t g a c t g g c g c a a t g a g g g t g t c c a c t c g c c c g c c c t g c c g g g a a g a g g a g g c

AfeI 3360 g g c t g t a a t t a g c g c t t g g t t t a a t g a c g g c t t g t t t c t t t t c t g t g g c t g c g t g a a a g c c c g a c a t t a a t c g c g a a c c a a a t t a c t g c c g a a c a a a g a a a a g a c a c c g a c g c a c t t t c g

PspOMIApaI 3420 c t t g a g g g g c t c c g g g a g g g c c c t t t g t g c g g g g g g a g c g g c t c g g g g c t g t c c g c g g g g g a a c t c c c c g a g g c c c t c c c g g g a a a c a c g c c c c c c t c g c c g a g c c c c g a c a g g c g c c c c

3480 G G T T C G G C T T C T G G C G T G T G A C C pCAGGS-5 g g a c g g c t g c c t t c g g g g g g g a c g g g g c a g g g c g g g g t t c g g c t t c t g g c g t g t g a c c g g c c t g c c g a c g g a a g c c c c c c c t g c c c c g t c c c g c c c c a a g c c g a a g a c c g c a c a c t g g c c

3540 G C A A C G T G C T G G T T A T T G T G pCAG-F c g g c t c t c t c c t g g g c a a c g t g c t g g t t a t t g t g c t g t c t c a t c a t t t t g g c a a a g a a t t g c c g a g a g a g g a c c c g t t g c a c g a c c a a t a a c a c g a c a g a g t a g t a a a a c c g t t t c t t a a

BspEIXbaIBamHI 3600 lox2272 g g a t c g 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 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 c c t a g c 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 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

3660 lox2272 loxP 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 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 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 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

BsrGIAscI 3720 * 230 KYLED loxP CyRFP1 *KYLED 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 g c g c c a t a a t a t c a c t t g t a c a g c t c g t c 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 c g c g g t a t t a t a g t g a a c a t g t c g a g c a g

PshAI 3780 225 220 215 210 MGGGLNSYRAVAHEYQEVYT CyRFP1 MGGGLNSYRAVAHEYQEVYT c a t g c c t c c g c c c a g g t t g g a g t a t c t g g c c a c a g c g t g c t c g t a c t g c t c g a c g t a g g t g t a c g g a g g c g g g t c c a a c c t c a t a g a c c g g t g t c g c a c g a g c a t g a c g a g c t g c a t c c a

3840 205 200 195 190 ENDAEKIRELRRDVYHVGPM CyRFP1 ENDAEKIRELRRDVYHVGPM c t c g t t g t c g g c c t c c t t g a t t c t t t c c a g t c t g c g g t c c a c g t a g t g g a c g c c g g g c a t g a g c a a c a g c c g g a g g a a c t a a g a a a g g t c a g a c g c c a g g t g c a t c a c c t g c g g c c c g t a

BmgBIBspMIPaqCIBfuAI 3900 185 180 175 170 KVPKKSKYTTKFNVHLHGGG CyRFP1 KVPKKSKYTTKFNVHLHGGG c t t c a c g g g t t t c t t g g a c t t g t a t g t g g t c t t g a a g t t g a c g t g c a g g t g g c c c c c g c c g a a g t g c c c a a a g a a c c t g a a c a t a c a c c a g a a c t t c a a c t g c a c g t c c a c c g g g g g c g g

3960 165 160 155 150 VLKLAKDCRGELGGDAPYMT CyRFP1 VLKLAKDCRGELGGDAPYMT c a c g a g c t t c a g g g c c t t g t c g c a t c t g c c t t c c a g g c c g c c g t c a g c g g g g t a c a t g g t g t g c t c g a a g t c c c g g a a c a g c g t a g a c g g a a g g t c c g g c g g c a g t c g c c c c a t g t a c c a

4020 145 140 135 130 ETSPEWGLTKKQMVPGNAPF CyRFP1 ETSPEWGLTKKQMVPGNAPF c t c g g t g c t g g g c t c c c a g c c c a g t g t t t t c t t c t g c a t c a c g g g g c c g t t g g c t g g g a a g a g c c a c g a c c c g a g g g t c g g g t c a c a a a a g a a g a c g t a g t g c c c c g g c a a c c g a c c c t t

Eco53kISacI 4080 125 120 115 110 NVGRLKVNYILEGDQLSTDQ CyRFP1 NVGRLKVNYILEGDQLSTDQ g t t c a c c c c t c t g a g c t t g a c g t t g t a g a t g a g c t c g c c g t c c t g g a g g c t g g t g t c c t g c a a g t g g g g a g a c t c g a a c t g c a a c a t c t a c t c g a g c g g c a g g a c c t c c g a c c a c a g g a c

Bsu36IBstBI 4140 105 100 95 90 TATLVGGDEFVMVREWTFGE CyRFP1 TATLVGGDEFVMVREWTFGE g g t g g c g g t c a g c a c g c c c c c g t c t t c g a a c a c c a t g a c t c t c t c c c a t g t g a a g c c c t c c c a c c g c c a g t c g t g c g g g g g c a g a a g c t t g t g g t a c t g a g a g a g g g t a c a c t t c g g g a g

4200 85 80 75 70 PFSQKFYDPLDAPYKIFVKS CyRFP1 PFSQKFYDPLDAPYKIFVKS a g g g a a g g a c t g c t t a a a a t a a t c g g g g a g g t c g g c g g g g t a c t t g a t g a a c a c c t t g c t t c c c t t c c t g a c g a a t t t t a t t a g c c c c t c c a g c c g c c c c a t g a a c t a c t t g t g g a a c g a

4260 65 60 55 50 GYMFMTALIDFAFPLPGGEV CyRFP1 GYMFMTALIDFAFPLPGGEV c c c g t a c a t a a a c a t g g t g g c c a g g a t g t c g a a t g c g a a c g g c a g g g g g c c t c c c t c c a c g g g c a t g t a t t t g t a c c a c c g g t c c t a c a g c t t a c g c t t g c c g t c c c c c g g a g g g a g g t g

4320 45 40 35 30 VKIRNTQKGEYPKGEGEHTC CyRFP1 VKIRNTQKGEYPKGEGEHTC c a c c t t g a t c c t g t t g g t c t g c t t g c c c t c g t a g g g c t t g c c c t c c c c t t c g t g g g t g c a g t g g a a c t a g g a c a a c c a g a c g a a c g g g a g c a t c c c g a a c g g g a g g g g a a g c a c c c a c g t

4380 25 20 15 10 KFQHGNVSGELYLKSRMNEK CyRFP1 KFQHGNVSGELYLKSRMNEK c t t g a a c t g g t g g c c g t t c a c g c t g c c t t c c a g g t a c a g c t t g c t t c t c a t g t t c t c c t t g a a c t t g a c c a c c g g c a a g t g c g a c g g a a g g t c c a t g t c g a a c g a a g a g t a c a a g a g g a a

BmtINheIAleIBclI* 4440 5 1 ILEEGKSVM CyRFP1 lox2272 Kozak sequence ILEEGKSVMTAVSALM g a t c a g c t c c t c g c c c t t g c t c a c c a t g g t g g c g a c c g a a g c t a g c a t a a c t t c g t a t a a c t a g t c g a g g a g c g g g a a c g a g t g g t a c c a c c g c t g g c t t c g a t c g t a t t g a a g c a t a t t

4500 lox2272 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 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 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 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

EcoRIEcoRVHindIII 4560 loxP MYAIRSYEFDIK 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 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 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 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

4620 WPRE LIDNQPLDYKICERLTGILN 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 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 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 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

4680 WPRE A C A A C G A G G A A A A T G C G A T A C WPRE-R MLL YVAPFTLCGYAALMPLYHAI 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 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 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 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

4740 WPRE LPVWLSFSPPCINPGCCLFM ASRMAFIFSSLYKSWLLSLY 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 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 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 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

4800 WPRE RSCGPLSGNVAWCALCLLTQ EELWPVVRQRGVVCTVFADA 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 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 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 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

4860 WPRE PPLVGALPPPVSSFPGLSLS TPTGWGIATTCQLLSGTFAF 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 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 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 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

4920 WPRE PSLLPRRNSSPPALPAAGQG PLPIATAELIAACLARCWTG 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 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 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 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

4980 WPRE *RGKR LGCWALTIPWCCRGNHRPFL ARLLGTDNSVVLSGKSSSFP 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 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 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 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

5040 WPRE (in frame with Factor Xa site) PQEGTNGGPNQAPRGEAVDR Factor Xa site GCSPVLPPGFCAGRPSATSL WLLACVATWILRGTSFCYVP g g c t g c t c g c c t g t g t t g c c a c c t g g a t t 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 c g a c g a g c g g a c a c a a c g g t g g a c c t a a 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

5100 WPRE 1 RGEI Factor Xa site RPSIQRTFLPAACCRLCGLF SALNPADLPSRGLLPALRPL 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 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 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 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

5160 WPRE RVFAFALRRVGSPFGPPPRI PRLRLRPQTSRISLWAASPH 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 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 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 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

EagINotI 5220 SV40 poly(A) signal C T A C T C A A A C EBV-rev DTVDPGGRFEQT* RYRRPGRPLRADMIRYIDEF g a t a c c g t c g a c c c g g g c g g c c g c t t c g a g c a g a c a t g a t a a g a t a c a t t g a t g a g t t t g c t a t g g c a g c t g g g c c c g c c g g c g a a g c t c g t c t g t a c t a t t c t a t g t a a c t a c t c a a a c

5280 SV40 poly(A) signal G A A A T T T G T G A T G C T A SV40pA-R C T G T T T G G T G EBV-rev GQTTTRMQ* g a c a a a c c a c a a c t a g a a t g c a g t g a a a a a a a t g c t t t a t t t g t g a a a t t t g t g a t g c t a c t g t t t g g t g t t g a t c t t a c g t c a c t t t t t t t a c g a a a t a a a c a c t t t a a a c a c t a c g a t

MfeIHpaI 5340 SV40 poly(A) signal T T G C SV40pA-R t t g c t t t a t t t g t a a c c a t t a t a a g c t g c a a t a a a c a a g t t a a c a a c a a c a a t t g c a t t c a a c g a a a t a a a c a t t g g t a a t a t t c g a c g t t a t t t g t t c a a t t g t t g t t g t t a a c g t a a g

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

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

5520 AAV2 ITR g g c g g g t t a a t c a t t a a c t a c a 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 c g c c c a a t t a g t a a t t g a t g t 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

5580 AAV2 ITR 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 c c c g g g c t t t g c 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 g g g c c c g a a a c g g

5640 AAV2 ITR 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 a t t a a t g a a t c g g c c a a c g c g 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 t a a t t a c t t a g c c g g t t g c g c g c c

5667 g g a g a g g c g g t t t g c g t a t t g g g c g c t c c t c t c c g c c a a a c g c a t a a c c c g c g 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.