Addgene pmScarlet-H_peroxisome_C1 - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pmScarlet-H_peroxisome_C1


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AflIII - PciI (4604) pBR322ori-F (4449 .. 4468) BsaI (3675) TK-pA-R (3540 .. 3559) PfoI (3461) BstBI (3368) Neo-F (3222 .. 3241) RsrII (3202) BsrDI (2919) PflFI - Tth111I (2804) FspI (2788) MscI (2768) Neo-R (2612 .. 2631) BspDI * - ClaI * (2526) StuI (2507) BseRI (2504) SfiI (2461) AseI (7) NdeI (234) SnaBI (340) CMV-F (519 .. 539) NheI (591) BmtI (595) AfeI (596) AgeI (600) BstEII (756) mCherry-R (746 .. 764) AhdI (795) SacII (990) mCherry-F (1014 .. 1033) BbsI (1036) NotI (1125) BsgI (1195) SalI (1198) AccI (1199) SgrAI (1282) XcmI (1287) BsrGI (1301) BamHI (1321) XbaI * (1333) MfeI (1436) HpaI (1449) SV40pA-R (1487 .. 1506) EBV-rev (1541 .. 1560) AflII (1568) F1ori-F (1715 .. 1736) DraIII (1802) F1ori-R (1927 .. 1946) pBABE 3' (2189 .. 2209) CsiI - SexAI * (2275) pmScarlet-H_peroxisome_C1 4662 bp

Sequence View

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

120 CMV enhancer c g t t a c a t a a c t t a c g g t a a 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 c a a t g t a t t g a a t g c c a t t 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

180 CMV enhancer 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 t c c a t t g a c g t c 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 a g g t a a c t g c a g t

NdeI 240 CMV enhancer 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 t g t a t c a t a t g c c 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 a c a t a g t a t a c g g

300 CMV enhancer a a g t a c g c c c c c t a t t g a c g t c a a t g a c g g t a a a t g g c c c g c c t g g c a t t a t g c c c a g t a t t c a t g c g g g g g a t a a c t g c a g t t a c t g c c a t t t a c c g g g c g g a c c g t a a t a c g g g t c a t

SnaBI 360 CMV enhancer c a t g a c c t t a t g g g a c t t t c c t a c t t g g c a g t a c a t c t a c g t a t t a g t c a t c g c t a t t a c g t a c t g g a a t a c c c t g a a a g g a t g a a c c g t c a t g t a g a t g c a t a a t c a g t a g c g a t a a t g

420 CMV enhancer CMV promoter c a t g g t g a t g c g g t t t t g g c a g t a c a t c a a t g g g c g t g g a t a g c g g t t t g a c t c a c g g g g g t a c c a c t a c g c c a a a a c c g t c a t g t a g t t a c c c g c a c c t a t c g c c a a a c t g a g t g c c c c

480 CMV promoter a t t t c c a a g t c t c c a c c c c a t t g a c g t c a a t g g g a g t t t g t t t t g g c a c c a a a a t c a a c g t a a a g g t t c a g a g g t g g g g t a a c t g c a g t t a c c c t c a a a c a a a a c c g t g g t t t t a g t t g c

540 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 g g a c t t t c c a a a a t g t c g t a a c a a c t c c g c c c c a t t g a c g c a a a t g g g c g g t a g g c g t g t c c t g a a a g g t t t t a c a g c a t t g t t g a g g c g g g g t a a c t g c g t t t a c c c g c c a t c c g c a c a

NheIBmtIAfeI 600 CMV promoter * a c g g t g g g a g g t c t a t a t a a g c a g a g c t g g t t t a g t g a a c c g t c a g a t c c g c t a g c g c t a t g c c a c c c t c c a g a t a t a t t c g t c t c g a c c a a a t c a c t t g g c a g t c t a g g c g a t c g c g a t

AgeI 660 1 5 10 15 MVSKGEAVIKEFMRFK mScarlet-H Kozak sequence MVSKGEAVIKEFMRFK RDGGHHALALCHDLLEHPEL c c g g t c g c c a c c a t g g t g a g c a a g g g c g a g g c a g t g a t c a a g g a g t t c a t g c g g t t c a a g g g c c a g c g g t g g t a c c a c t c g t t c c c g c t c c g t c a c t a g t t c c t c a a g t a c g c c a a g t t c

720 20 25 30 35 VHMEGSMNGHEFEIEGEGEG mScarlet-H VHMEGSMNGHEFEIEGEGEG HVHLAGHVAVLELDLALALA g t g c a c a t g g a g g g c t c c a t g a a c g g c c a c g a g t t c g a g a t c g a g g g c g a g g g c g a g g g c c a c g t g t a c c t c c c g a g g t a c t t g c c g g t g c t c a a g c t c t a g c t c c c g c t c c c g c t c c c g

BstEII 780 40 45 50 55 RPYEGTQTAKLKVTKGGPLP mScarlet-H G G T T C G A C T T C C A C T G G T T mCherry-R RPYEGTQTAKLKVTKGGPLP AGVLAGLGGLQLHGLTAGQG c g c c c c t a c g a g g g c a c c c a g a c c g c c a a g c t g a a g g t g a c c a a g g g t g g c c c c c t g c c c g c g g g g a t g c t c c c g t g g g t c t g g c g g t t c g a c t t c c a c t g g t t c c c a c c g g g g g a c g g g

AhdI 840 60 65 70 75 FSWDILSPQFMYGSRAFTKH mScarlet-H FSWDILSPQFMYGSRAFTKH EGPVDQGRLEHVAGPGEGLV t t c t c c t g g g a c a t c c t g t c c c c t c a g t t c a t g t a c g g c t c c a g g g c c t t c a c c a a g c a c a a g a g g a c c c t g t a g g a c a g g g g a g t c a a g t a c a t g c c g a g g t c c c g g a a g t g g t t c g t g

900 80 85 90 95 PADIPDYYKQSFPEGFKWER mScarlet-H PADIPDYYKQSFPEGFKWER GGVDGVVILLGEGLAELPLA c c c g c c g a c a t c c c c g a c t a c t a t a a g c a g t c c t t c c c c g a g g g c t t c a a g t g g g a g c g c g g g c g g c t g t a g g g g c t g a t g a t a t t c g t c a g g a a g g g g c t c c c g a a g t t c a c c c t c g c g

960 100 105 110 115 VMNFEDGGAVTVTQDTSLED mScarlet-H VMNFEDGGAVTVTQDTSLED HHVELVAAGHGHGLVGGQLV g t g a t g a a c t t c g a g g a c g g c g g c g c c g t g a c c g t g a c c c a g g a c a c c t c c c t g g a g g a c c a c t a c t t g a a g c t c c t g c c g c c g c g g c a c t g g c a c t g g g t c c t g t g g a g g g a c c t c c t g

SacII 1020 120 125 130 135 GTLIYKVKLRGTNFPPDGPV mScarlet-H C C C C G T A mCherry-F GTLIYKVKLRGTNFPPDGPV AGQDVLHLEAAGVERRVAGY g g c a c c c t g a t c t a c a a g g t g a a g c t c c g c g g c a c c a a c t t c c c t c c t g a c g g c c c c g t a c c g t g g g a c t a g a t g t t c c a c t t c g a g g c g c c g t g g t t g a a g g g a g g a c t g c c g g g g c a t

BbsI 1080 140 145 150 155 MQKKTMGWEASTERLYPEDG mScarlet-H A T G C A G A A G A A G A mCherry-F MQKKTMGWEASTERLYPEDG HLLLCHAPFCGGLPQVGLVA a t g c a g a a g a a g a c a a t g g g c t g g g a a g c a t c c a c c g a g c g g t t g t a c c c c g a g g a c g g c t a c g t c t t c t t c t g t t a c c c g a c c c t t c g t a g g t g g c t c g c c a a c a t g g g g c t c c t g c c g

NotI 1140 160 165 170 175 VLKGDIKHALRLKDGGRYLA mScarlet-H VLKGDIKHALRLKDGGRYLA HQLAVNLVGQAQLVAAAVQR g t g c t g a a g g g c g a c a t t a a g c a c g c c c t g c g c c t g a a g g a c g g c g g c c g c t a c c t g g c g c a c g a c t t c c c g c t g t a a t t c g t g c g g g a c g c g g a c t t c c t g c c g c c g g c g a t g g a c c g c

BsgISalIAccI 1200 180 185 190 195 DFKTTYKAKKPVQMPGAYNV mScarlet-H DFKTTYKAKKPVQMPGAYNV VELGGVLGLLGHLHGAGVVD g a c t t c a a g a c c a c c t a c a a g g c c a a g a a g c c c g t g c a g a t g c c c g g c g c c t a c a a c g t c c t g a a g t t c t g g t g g a t g t t c c g g t t c t t c g g g c a c g t c t a c g g g c c g c g g a t g t t g c a g

1260 200 205 210 215 DRKLDITSHNEDYTVVEQYE mScarlet-H DRKLDITSHNEDYTVVEQYE VALQVDGGVVLVVGHHFLVF g a c c g c a a g t t g g a c a t c a c c t c c c a c a a c g a g g a c t a c a c c g t g g t g g a a c a g t a c g a a c t g g c g t t c a a c c t g t a g t g g a g g g t g t t g c t c c t g a t g t g g c a c c a c c t t g t c a t g c t t

BsrGIXcmISgrAI 1320 220 225 230 RSEGRHSTGGMDELYK SRL* mScarlet-H RSEGRHSTGGMDELYKSRL* AGLAAVGGAAHVLQVLGAEL c g c t c c g a g g g c c g c c a c t c c a c c g g c g g c a t g g a c g a g c t g t a c a a g t c c c g c c t c t a a g c g a g g c t c c c g g c g g t g a g g t g g c c g c c g t a c c t g c t c g a c a t g t t c a g g g c g g a g a t t

XbaI*BamHI 1380 SGGSRSLQDYDAM g g a t c c a c c g g a t c t a g a t a a c t g a t c a t a a t c a g c c a t a c c a c a t t t g t a g a g g t t t t a c c t a g g t g g c c t a g a t c t a t t g a c t a g t a t t a g t c g g t a t g g t g t a a a c a t c t c c a a a a t

MfeI 1440 c t t g c t t t a a a a a a c c t c c c a c a c c t c c c c c t g a a c c t g a a a c a t a a a a t g a a t g c a a t t g a a c g a a a t t t t t t g g a g g g t g t g g a g g g g g a c t t g g a c t t t g t a t t t t a c t t a c g t t a a

HpaI 1500 SV40 poly(A) signal C G T T A T C G T A G T G T SV40pA-R g t t g t t g t t a a c t t g t t t a t t g c a g c t t a t a a t g g t t a c a a a t a a a g c a a t a g c a t c a c a c a a c a a c a a t t g a a c a a a t a a c g t c g a a t a t t a c c a a t g t t t a t t t c g t t a t c g t a g t g t

1560 SV40 poly(A) signal G T G G T T T G T C C A A A C T C A T C EBV-rev T T A A A G SV40pA-R a a t t t c a c a a a t a a a g c a t t t t t t t c a c t g c a t t c t a g t t g t g g t t t g t c c a a a c t c a t c t t a a a g t g t t t a t t t c g t a a a a a a a g t g a c g t a a g a t c a a c a c c a a a c a g g t t t g a g t a g

AflII 1620 SV40 poly(A) signal f1 ori a a t g t a t c t t a a g g c g 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 a c a t a g a a t t c c g c 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

1680 f1 ori t t g t t a 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 c a a t 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

1740 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 a a a g a 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 t t t t c t 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

1800 f1 ori a a a g a a 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 t t t c t t 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

DraIII 1860 f1 ori a c g t g a 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 t g c a c t 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

1920 f1 ori g a a c c c 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 c t t g g g 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

1980 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 a a g g a 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 t t t c c t 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

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

2100 AmpR promoter 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 t c a a a 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 a a g t t t

2160 AmpR promoter 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 g a a 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 t t c c t t

2220 AmpR promoter SV40 promoter SV40 enhancer C C T T A C A C A C A G T C A A T C C C A pBABE 3' g a g t c c t g a g g c g g a a a g a a c c a g c t g t g g a a t g t g t g t c a g t t a g g g t g t g g a a a g t c c c t c a g g a c t c c g c c t t t c t t g g t c g a c a c c t t a c a c a c a g t c a a t c c c a c a c c t t t c a g g

SexAI*CsiI 2280 SV40 promoter SV40 enhancer c c a g g c t c c c c a g c a g g c a g a a g t a t g c a a a g c a t g c a t c t c a a t t a g t c a g c a a c c a g g g g t c c g a g g g g t c g t c c g t c t t c a t a c g t t t c g t a c g t a g a g t t a a t c a g t c g t t g g t c c

2340 SV40 promoter SV40 enhancer t g t g g a a a g t c c c c a g g c t c c c c a g c a g g c a g a a g t a t g c a a a g c a t g c a t c t c a a t t a g a c a c c t t t c a g g g g t c c g a g g g g t c g t c c g t c t t c a t a c g t t t c g t a c g t a g a g t t a a t c

2400 SV40 promoter SV40 enhancer SV40 ori t c a g c a a c c a t a g t c c c g c c c c t a a c t c c g c c c a t c c c g c c c c t a a c t c c g c c c a g t t c c a g t c g t t g g t a t c a g g g c g g g g a t t g a g g c g g g t a g g g c g g g g a t t g a g g c g g g t c a a g g

2460 SV40 promoter SV40 ori g c c c a t t c t c c g c c c c a t g g c t g a c t a a t t t t t t t t a t t t a t g c a g a g g c c g a g g c c g c c c g g g t a a g a g g c g g g g t a c c g a c t g a t t a a a a a a a a t a a a t a c g t c t c c g g c t c c g g c g g

BseRIStuISfiI 2520 SV40 promoter SV40 ori t c g g c c t c t g a g c t a t t c c a g a a g t a g t g a g g a g g c t t t t t t g g a g g c c t a g g c t t t t g c a g c c g g a g a c t c g a t a a g g t c t t c a t c a c t c c t c c g a a a a a a c c t c c g g a t c c g a a a a c g

BspDI*ClaI* 2580 1 5 MIEQDGLH SV40 promoter NeoR/KanR 1 5 MIEQDGLH NeoR/KanR MIEQDGLH a a a g a t c g a t c a a g a g a c a g g a t g a g g a t c g t t t c g c a t g a t t g a a c a a g a t g g a t t g c a t t t c t a g c t a g t t c t c t g t c c t a c t c c t a g c a a a g c g t a c t a a c t t g t t c t a c c t a a c g t

2640 10 15 20 25 AGSPAAWVERLFGYDWAQQT NeoR/KanR 10 15 20 25 AGSPAAWVERLFGYDWAQQT NeoR/KanR G A T A A G C C G A T A C T G A C C C G Neo-R AGSPAAWVERLFGYDWAQQT c g c a g g t t c t c c g g c c g c t t g g g t g g a g a g g c t a t t c g g c t a t g a c t g g g c a c a a c a g a c g c g t c c a a g a g g c c g g c g a a c c c a c c t c t c c g a t a a g c c g a t a c t g a c c c g t g t t g t c t g

2700 30 35 40 45 IGCSDAAVFRLSAQGRPVLF NeoR/KanR 30 35 40 45 IGCSDAAVFRLSAQGRPVLF NeoR/KanR IGCSDAAVFRLSAQGRPVLF a a t c g g c t g c t c t g a t g c c g c c g t g t t c c g g c t g t c a g c g c a g g g g c g c c c g g t t c t t t t t t a g c c g a c g a g a c t a c g g c g g c a c a a g g c c g a c a g t c g c g t c c c c g c g g g c c a a g a a a a

2760 50 55 60 65 VKTDLSGALNELQDEAARLS NeoR/KanR 50 55 60 65 VKTDLSGALNELQDEAARLS NeoR/KanR VKTDLSGALNELQDEAARLS t g t c a a g a c c g a c c t g t c c g g t g c c c t g a a t g a a c t g c a a g a c g a g g c a g c g c g g c t a t c a c a g t t c t g g c t g g a c a g g c c a c g g g a c t t a c t t g a c g t t c t g c t c c g t c g c g c c g a t a g

Tth111IPflFIFspIMscI 2820 70 75 80 85 WLATTGVPCAAVLDVVTEAG NeoR/KanR 70 75 80 85 WLATTGVPCAAVLDVVTEAG NeoR/KanR WLATTGVPCAAVLDVVTEAG g t g g c t g g c c a c g a c g g g c g t t c c t t g c g c a g c t g t g c t c g a c g t t g t c a c t g a a g c g g g c a c c g a c c g g t g c t g c c c g c a a g g a a c g c g t c g a c a c g a g c t g c a a c a g t g a c t t c g c c c

2880 90 95 100 105 RDWLLLGEVPGQDLLSSHLA NeoR/KanR 90 95 100 105 RDWLLLGEVPGQDLLSSHLA NeoR/KanR RDWLLLGEVPGQDLLSSHLA *RVKS a a g g g a c t g g c t g c t a t t g g g c g a a g t g c c g g g g c a g g a t c t c c t g t c a t c t c a c c t t g c t t c c c t g a c c g a c g a t a a c c c g c t t c a c g g c c c c g t c c t a g a g g a c a g t a g a g t g g a a c g

BsrDI 2940 110 115 120 125 PAEKVSIMADAMRRLHTLDP NeoR/KanR 110 115 120 125 PAEKVSIMADAMRRLHTLDP NeoR/KanR PAEKVSIMADAMRRLHTLDP RGLFYGDHSICHPPQMRKIR t c c t g c c g a g a a a g t a t c c a t c a t g g c t g a t g c a a t g c g g c g g c t g c a t a c g c t t g a t c c a g g a c g g c t c t t t c a t a g g t a g t a c c g a c t a c g t t a c g c c g c c g a c g t a t g c g a a c t a g g

3000 130 135 140 145 ATCPFDHQAKHRIERARTRM NeoR/KanR 130 135 140 145 ATCPFDHQAKHRIERARTRM NeoR/KanR ATCPFDHQAKHRIERARTRM SGAWEVVLRFMADLSCTSPH g g c t a c c t g c c c a t t c g a c c a c c a a g c g a a a c a t c g c a t c g a g c g a g c a c g t a c t c g g a t c c g a t g g a c g g g t a a g c t g g t g g t t c g c t t t g t a g c g t a g c t c g c t c g t g c a t g a g c c t a

3060 150 155 160 165 EAGLVDQDDLDEEHQGLAPA NeoR/KanR 150 155 160 165 EAGLVDQDDLDEEHQGLAPA NeoR/KanR EAGLVDQDDLDEEHQGLAPA FGTKDILIIQVFLMLPERWG g g a a g c c g g t c t t g t c g a t c a g g a t g a t c t g g a c g a a g a g c a t c a g g g g c t c g c g c c a g c c c t t c g g c c a g a a c a g c t a g t c c t a c t a g a c c t g c t t c t c g t a g t c c c c g a g c g c g g t c g

3120 170 175 180 185 ELFARLKASMPDGEDLVVTH NeoR/KanR 170 175 180 185 ELFARLKASMPDGEDLVVTH NeoR/KanR ELFARLKASMPDGEDLVVTH FQEGPELRAHGVALIEDHGM c g a a c t g t t c g c c a g g c t c a a g g c g a g c a t g c c c g a c g g c g a g g a t c t c g t c g t g a c c c a g c t t g a c a a g c g g t c c g a g t t c c g c t c g t a c g g g c t g c c g c t c c t a g a g c a g c a c t g g g t

3180 190 195 200 205 GDACLPNIMVENGRFSGFID NeoR/KanR 190 195 200 205 GDACLPNIMVENGRFSGFID NeoR/KanR GDACLPNIMVENGRFSGFID AIGAQRIDHHFIAAKRSEDV t g g c g a t g c c t g c t t g c c g a a t a t c a t g g t g g a a a a t g g c c g c t t t t c t g g a t t c a t c g a a c c g c t a c g g a c g a a c g g c t t a t a g t a c c a c c t t t t a c c g g c g a a a a g a c c t a a g t a g c t

RsrII 3240 210 215 220 225 CGRLGVADRYQDIALATRDI NeoR/KanR 210 215 220 225 CGRLGVADRYQDIALATRDI NeoR/KanR C G T T G G C T A C C C G T G A T A T Neo-F CGRLGVADRYQDIALATRDI TAPQTHRVAILVYRQSGTIN c t g t g g c c g g c t g g g t g t g g c g g a c c g c t a t c a g g a c a t a g c g t t g g c t a c c c g t g a t a t g a c a c c g g c c g a c c c a c a c c g c c t g g c g a t a g t c c t g t a t c g c a a c c g a t g g g c a c t a t a

3300 230 235 240 245 AEELGGEWADRFLVLYGIAA NeoR/KanR 230 235 240 245 AEELGGEWADRFLVLYGIAA NeoR/KanR T Neo-F AEELGGEWADRFLVLYGIAA SFLKAAFPSVAEEHKVTDGS t g c t g a a g a g c t t g g c g g c g a a t g g g c t g a c c g c t t c c t c g t g c t t t a c g g t a t c g c c g c a c g a c t t c t c g a a c c g c c g c t t a c c c g a c t g g c g a a g g a g c a c g a a a t g c c a t a g c g g c g

3360 250 255 260 265 PDSQRIAFYRLLDEFF* NeoR/KanR 250 255 260 265 PDSQRIAFYRLLDEFF* NeoR/KanR PDSQRIAFYRLLDEFF* GIRLADGEIAKKVLEESRSE t c c c g a t t c g c a g c g c a t c g c c t t c t a t c g c c t t c t t g a c g a g t t c t t c t g a g c g g g a c t a g g g c t a a g c g t c g c g t a g c g g a a g a t a g c g g a a g a a c t g c t c a a g a a g a c t c g c c c t g a

BstBI 3420 MTDQATPNLPSRDFDS PTRFSRGLSAWGAM c t g g g g t t c g a a a t g a c c g a c c a a g c g a c g c c c a a c c t g c c a t c a c g a g a t t t c g a t t c c g a c c c c a a g c t t t a c t g g c t g g t t c g c t g c g g g t t g g a c g g t a g t g c t c t a a a g c t a a g g

PfoI 3480 TAAFYERLGFGIVFRDAGWM a c c g c c g c c t t c t a t g a a a g g t t g g g c t t c g g a a t c g t t t t c c g g g a c g c c g g c t g g a t g t g g c g g c g g a a g a t a c t t t c c a a c c c g a a g c c t t a g c a a a a g g c c c t g c g g c c g a c c t a c

3540 A TK-pA-R ILQRGDLMLEFFAHPRGRLT a t c c t c c a g c g c g g g g a t c t c a t g c t g g a g t t c t t c g c c c a c c c t a g g g g g a g g c t a a c t t a g g a g g t c g c g c c c c t a g a g t a c g a c c t c a a g a a g c g g g t g g g a t c c c c c t c c g a t t g a

3600 HSV TK poly(A) signal C T T T G T G C C T T C C T C T G T T TK-pA-R ETRKETIPEGTRAMTAIKRQ g a a a c a c g g a a g g a g a c a a t a c c g g a a g g a a c c c g c g c t a t g a c g g c a a t a a a a a g a c a g c t t t g t g c c t t c c t c t g t t a t g g c c t t c c t t g g g c g c g a t a c t g c c g t t a t t t t t c t g t c

3660 HSV TK poly(A) signal NKTHGVGSFVHKRGVRSQGW a a t a a a a c g c a c g g t g t t g g g t c g t t t g t t c a t a a a c g c g g g g t t c g g t c c c a g g g c t g g t t a t t t t g c g t g c c a c a a c c c a g c a a a c a a g t a t t t g c g c c c c a a g c c a g g g t c c c g a c c

BsaI 3720 HSVDTPPRPHWGQYARVSSF c a c t c t g t c g a t a c c c c a c c g a g a c c c c a t t g g g g c c a a t a c g c c c g c g t t t c t t c c t t t g t g a g a c a g c t a t g g g g t g g c t c t g g g g t a a c c c c g g t t a t g c g g g c g c a a a g a a g g a a a

3780 SPPHPPSSGEGPGLAANVGA t c c c c a c c c c a c c c c c c a a g t t c g g g t g a a g g c c c a g g g c t c g c a g c c a a c g t c g g g g c g a g g g g t g g g g t g g g g g g t t c a a g c c c a c t t c c g g g t c c c g a g c g t c g g t t g c a g c c c c g c

3840 AGPAIASGYSYIL* g c a g g c c c t g c c a t a g c c t c a g g t t a c t c a t a t a t a c t t t a g a t t g a t t t a a a a c t t c a t c g t c c g g g a c g g t a t c g g a g t c c a a t g a g t a t a t a t g a a a t c t a a c t a a a t t t t g a a g t a

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

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

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

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

4140 ori 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 c c t t c t a g t g t a g c c g t a g t t a g g c c a c c a c t t c 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 g g a a g a t c a c a t c g g c a t c a a t c c g g t g g t g a a g

4200 ori 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 a a t c c t g t t a c c a g t g g c t g c t 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 t t a g g a c a a t g g t c a c c g a c g a

4260 ori 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 a a g a c g a t a g t t a c c g g a t a a g 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 t t c t g c t a t c a a t g g c c t a t t c

4320 ori 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 g c c c a g c t t g g a g c g a a c g a c 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 c g g g t c g a a c c t c g c t t g c t g g

4380 ori 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 a a g c g c c a c g c t t c c c g a a g 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 t t c g c g g t g c g a a g g g c t t c c c

4440 ori 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 a a c a g g a g a g c g c a c g a g g g a g 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 t t g t c c t c t c g c g t g c t c c c t c

4500 ori G G G A A A C G C C T G G T A T C T T T pBR322ori-F 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 c g g g t t t c g c c a c c t c t g a c t t 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 g c c c a a a g c g g t g g a g a c t g a a

4560 ori 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 c c t a t g g a a a a a c g c c a g c a a c 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 g g a t a c c t t t t t g c g g t c g t t g

AflIIIPciI 4620 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 t g c t c a c a t g t t c t t t c c t g c 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 a c g a g t g t a c a a g a a a g g a c g c

3ʹ 5ʹ 4662 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 a t g c a t 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 t a c g t 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.