Addgene pSkipFlox Sequencing Result - Sequence Analyzer Skip to main content
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Sequence Analyzer: pSkipFlox Sequencing Result

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4000 3000 2000 1000 End (4039) BseRI (3860) BglII (3849) NotI (3821) SP6 (3790 .. 3807) M13 rev M13 Reverse (3756 .. 3772) lac operator M13/pUC Reverse (3737 .. 3759) CAP binding site SapI - BspQI (3543) L4440 (3524 .. 3541) PciI - AflIII (3426) pBR322ori-F (3271 .. 3290) AlwNI (3017) AhdI (2538) BsaI (2472) BpmI (2469) BsrFI (2453) NmeAIII (2391) ScaI (2057) Amp-R (1969 .. 1988) XmnI (1938) AatII (1619) ZraI (1617) pBRforEco (1560 .. 1578) pGEX 3' (1500 .. 1522) PfoI (1499) pRS-marker (1381 .. 1400) BstAPI (1368) PluTI (1315) SfoI (1313) NarI (1312) KasI (1311) M13/pUC Forward (1165 .. 1187) M13 Forward (1156 .. 1173) M13 fwd T7 (1130 .. 1149) EcoRI (1123) XbaI (1119) HindIII (551) BsaBI * (450) BanII (416) NruI * (383) BsgI (339) PpuMI (311) BbsI (237) MscI (155) BtgI - StyI - NcoI (150) BamHI (146) Start (0) BSD T7 promoter AmpR promoter AmpR ori lac promoter SP6 promoter pSkipFlox 4039 bp

Sequence View

Start (0) 5ʹ 3ʹ 60 a t t c t t g t c a c a a t a a a a a t a t a t a t a t a t a t a t a t a t a t t t a t a a t a t g t a t a t t t t a a t a a g a a c a g t g t t a t t t t t a t a t a t a t a t a t a t a t a t a t a a a t a t t a t a c a t a t a a a a t t

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

MscIBamHINcoIStyIBtgI 180 1 5 10 MAKPLSQEES BSD a t a a a t a c c t a a t a g a a a t a t a t c a g g a t c c a t g g c c a a g c c t t t g t c t c a a g a a g a a t c t a t t t a t g g a t t a t c t t t a t a t a g t c c t a g g t a c c g g t t c g g a a a c a g a g t t c t t c t t a g

BbsI 240 15 20 25 30 TLIERATATINSIPISEDYS BSD c a c c c t c a t t g a a a g a g c a a c g g c t a c a a t c a a c a g c a t c c c c a t c t c t g a a g a c t a c a g g t g g g a g t a a c t t t c t c g t t g c c g a t g t t a g t t g t c g t a g g g g t a g a g a c t t c t g a t g t c

300 35 40 45 50 VASAALSSDGRIFTGVNVYH BSD c g t c g c c a g c g c a g c t c t c t c t a g c g a c g g c c g c a t c t t c a c t g g t g t c a a t g t a t a t c a g c a g c g g t c g c g t c g a g a g a g a t c g c t g c c g g c g t a g a a g t g a c c a c a g t t a c a t a t a g t

BsgIPpuMI 360 55 60 65 70 FTGGPCAELVVLGTAAAAAA BSD t t t t a c t g g g g g a c c t t g t g c a g a a c t c g t g g t g c t g g g c a c t g c t g c t g c t g c g g c a g c a a a a t g a c c c c c t g g a a c a c g t c t t g a g c a c c a c g a c c c g t g a c g a c g a c g a c g c c g t c g

BanIINruI* 420 75 80 85 90 GNLTCIVAIGNENRGILSPC BSD t g g c a a c c t g a c t t g t a t c g t c g c g a t c g g a a a t g a g a a c a g g g g c a t c t t g a g c c c c t g a c c g t t g g a c t g a a c a t a g c a g c g c t a g c c t t t a c t c t t g t c c c c g t a g a a c t c g g g g a c

BsaBI* 480 95 100 105 110 GRCRQVLLDLHPGIKAIVKD BSD c g g a c g g t g c c g a c a g g t g c t t c t c g a t c t g c a t c c t g g g a t c a a a g c c a t a g t g a a g g a g c c t g c c a c g g c t g t c c a c g a a g a g c t a g a c g t a g g a c c c t a g t t t c g g t a t c a c t t c c t

540 115 120 125 130 SDGQPTAVGIRELLPSGYVW BSD c a g t g a t g g a c a g c c g a c g g c a g t t g g g a t t c g t g a a t t g c t g c c c t c t g g t t a t g t g t g g t c a c t a c c t g t c g g c t g c c g t c a a c c c t a a g c a c t t a a c g a c g g g a g a c c a a t a c a c a c

HindIII 600 EG* BSD g g a g g g c t a a a a g c t t a t t t a a t a a t a g a t t a a a a a t a t t a t a a a a a t a a a a a c a t a a a c c c t c c c g a t t t t c g a a t a a a t t a t t a t c t a a t t t t t a t a a t a t t t t t a t t t t t g t a t t t g

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

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

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

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

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

960 t t a t t t t a a a a c a a a a t g t a t t t t c t a a g a a c t t a t a a t a a t a a t a a a t a t a a a t t t t a a a a t a a a a t t t t g t t t t a c a t a a a a g a t t c t t g a a t a t t a t t a t t a t t t a t a t t t a a a a t t

1020 t a a a a a t t a t a t t t a t c t t t t a c a a t a t g a a c a t a a a g t a c a a c a t t a a t a t a t a g c t t t a t t t t t a a t a t a a a t a g a a a a t g t t a t a c t t g t a t t t c a t g t t g t a a t t a t a t a t c g a a a

1080 t a a t a t t t t t a t t c c t a a t c a t g t a a a t c t t a a a t t t t t c t t t t t a a a c a t a t g t t a a a t a t t a t a a a a a t a a g g a t t a g t a c a t t t a g a a t t t a a a a a g a a a a a t t t g t a t a c a a t t t a

EcoRIXbaI 1140 T7 promoter G G G A T A T C A C T T7 a t t t a t t t c t c a t t a t a t a t a a g a a c a t a t t t a t t a a a t c t a g a a t t c g c c c t a t a g t g a t a a a t a a a g a g t a a t a t a t a t t c t t g t a t a a a t a a t t t a g a t c t t a a g c g g g a t a t c a c t

1200 T7 promoter M13 fwd C A G C 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 g t c g t a t t a c a a t 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 c a g c a t a a t g t t a 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

1260 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 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 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 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

KasINarISfoIPluTI 1320 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 t g c g c a g c c t g a a t g g c g a a t g g c g c c t g a 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 a c g c g t c g g a c t t a c c g c t t a c c g c g g a c t a

BstAPI 1380 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 t g g t g c a c t c t c a g 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 a c c a c g t g a g a g t c

1440 A T G T T A G A C G A G A C T A C G G C pRS-marker 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 g a 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 c t

PfoI 1500 C pGEX 3' 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 t c 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 a g

1560 C G G G A G C T G C A T G T G T C A G A G G pGEX 3' C pBRforEco 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 g 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 c c

ZraIAatII 1620 G G A G C A C T A T G C G G A T A A pBRforEco 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 t 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 a g

1680 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

1740 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

1800 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

1860 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

1920 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 1980 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

2040 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 2100 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

2160 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

2220 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

2280 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

2340 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

NmeAIII 2400 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

BsrFI 2460 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

BpmIBsaI 2520 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

AhdI 2580 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

2640 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

2700 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

2760 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

2820 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

2880 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

2940 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

3000 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 3060 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

3120 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

3180 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

3240 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

3300 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

3360 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

3420 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 3480 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

3540 A G C G A G T C A G T G A G C G A L4440 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 3600 G L4440 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 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 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 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

3660 CAP binding site 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 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 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 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

3720 -35 -10 CAP binding site lac promoter 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 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 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 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

3780 -10 lac promoter 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 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 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 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 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

NotI 3840 SP6 promoter A T T T A G G T G A C A C T A T A G SP6 c g c c a a g c t a t t t a g g t g a c a c t a t a g a a t a c t c a a g c t g c g g c c g c t a a c g t a a c a g a c g c g g t t c g a t a a a t c c a c t g t g a t a t c t t a t g a g t t c g a c g c c g g c g a t t g c a t t g t c t g

BseRIBglII 3900 t t a g g a g g a g a t c t t a g t a g t t g a g t g a t t c t a t a t a c a t a t a c a t a a a t a a a t t a c a t a a a t c c t c c t c t a g a a t c a t c a a c t c a c t a a g a t a t a t g t a t a t g t a t t t a t t t a a t g t a t

3960 a t a t t a t a a a t t t t t t t t a t a t t a t a t t a g a a t g t t t a c t a t a t a a a a a t a a a t a t t t t c t a t a a t a t t t a a a a a a a a t a t a a t a t a a t c t t a c a a a t g a t a t a t t t t t a t t t a t a a a a g

4020 t t a t a t a t t t t t t t a t t t t t c c a t a t g a a a a a a g a a a t t t t t t a t a t a t t t t t t t a t t a t a a t a t a t a a a a a a a t a a a a a g g t a t a c t t t t t t c t t t a a a a a a t a t a t a a a a a a a t a a t a

End (4039) 3ʹ 5ʹ 4039 a t t t t a t a a a t a a a a a a g a t a a a a t a t t t a t t t t t t c 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.