Addgene pAAV.CAG.Flex.NES-jRCaMP1a.WPRE.SV40 Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pAAV.CAG.Flex.NES-jRCaMP1a.WPRE.SV40 Sequencing Result


Map View

6000 4000 2000 End (6357) AfeI (6109) ApaI (6044) PspOMI (6040) pCAGGS-5 (5945 .. 5967) XbaI (5933) pCAG-F (5864 .. 5883) BsrGI (5665) BfuAI - BspMI (5161) Esp3I - BsmBI (5142) KpnI (4803) Acc65I (4799) BstEII (4616) SacI (4532) Eco53kI (4530) calmodulin-binding peptide Xpress™ tag T7 tag (gene 10 leader) BmtI (4398) NheI (4394) 6xHis AflII (4325) lox2272 BglII (4196) loxP BstBI (4131) EcoRI (4127) EcoRV (4123) HindIII (4115) WPRE-R (4035 .. 4055) NotI - EagI (3494) EBV-rev (3447 .. 3466) SV40pA-R (3393 .. 3412) MfeI (3342) PciI (2884) pBR322ori-F (2729 .. 2748) ScaI (1515) Amp-R (1427 .. 1446) F1ori-F (920 .. 941) DraIII (856) F1ori-R (710 .. 729) NdeI (240) NcoI (112) Start (0) AAV2 ITR f1 ori AmpR promoter AmpR ori AAV2 ITR SV40 poly(A) signal WPRE loxP lox2272 Factor Xa site pAAV.CAG.Flex.NES-jRCaMP1a.WPRE.SV40 6357 bp

Sequence View

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

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

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

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

NdeI 300 t a t g a t a c a c t t g a t g t a c t g c c a a g t g g g c a g t t t a c c g t a a a t a c t c c a c c c a t t g a c a t a c t a t g t g a a c t a c a t g a c g g t t c a c c c g t c a a a t g g c a t t t a t g a g g t g g g t a a c t g

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

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

480 AAV2 ITR 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 g c g c t c g c t c g c t c a c t g a 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 g c g c g a g c g a g c g a g t g a c t c

540 AAV2 ITR 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 c g g c c t c a g t g a g c g a g 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 g c c g g a g t c a c t c g c t c

600 AAV2 ITR c g a g c g c g 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 t g g c t c g c g c 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 a c

660 f1 ori 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 t g 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 a c

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

780 f1 ori A A G A A G G G A F1ori-R 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 g 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 c c

840 f1 ori 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 a g 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 t c

DraIII 900 f1 ori 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 g 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 a c

960 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 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 t 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 a g

1020 f1 ori 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 t 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 t a

1080 f1 ori 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 a g 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 t c

1140 AmpR promoter 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 t 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 a a

1200 AmpR promoter 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 t t

1260 1 5 10 15 signal sequence MSIQHFRVALIPFFAAF AmpR promoter AmpR MSIQHFRVALIPFFAAF 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 a a

1320 20 signal sequence CLPVFA 25 30 35 HPETLVKVKDAEDQ AmpR CLPVFAHPETLVKVKDAEDQ 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 g t 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 c a

1380 40 45 50 55 LGARVGYIELDLNSGKILES AmpR LGARVGYIELDLNSGKILES 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 t t 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 a a

1440 60 65 70 75 FRPEERFPMMSTFKVLLCGA AmpR C G A T A C A C C G C G C C Amp-R FRPEERFPMMSTFKVLLCGA 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 g g 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 c c

1500 80 85 90 95 VLSRIDAGQEQLGRRIHYSQ AmpR A T A A T A Amp-R VLSRIDAGQEQLGRRIHYSQ 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 g a 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 c t

ScaI 1560 100 105 110 115 NDLVEYSPVTEKHLTDGMTV AmpR NDLVEYSPVTEKHLTDGMTV 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 a a 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 t t

1620 120 125 130 135 RELCSAAITMSDNTAANLLL AmpR RELCSAAITMSDNTAANLLL 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 g a 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 c t

1680 140 145 150 155 TTIGGPKELTAFLHNMGDHV AmpR TTIGGPKELTAFLHNMGDHV 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 a a 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 t t

1740 160 165 170 175 TRLDRWEPELNEAIPNDERD AmpR TRLDRWEPELNEAIPNDERD 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 c a 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 g t

1800 180 185 190 195 TTMPVAMATTLRKLLTGELL AmpR TTMPVAMATTLRKLLTGELL 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 t a 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 a t

1860 200 205 210 215 TLASRQQLIDWMEADKVAGP AmpR TLASRQQLIDWMEADKVAGP 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 c 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 t g

1920 220 225 230 235 LLRSALPAGWFIADKSGAGE AmpR LLRSALPAGWFIADKSGAGE 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 g c 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 c g

1980 240 245 250 255 RGSRGIIAALGPDGKPSRIV AmpR RGSRGIIAALGPDGKPSRIV 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 a 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 t c

2040 260 265 270 275 VIYTTGSQATMDERNRQIAE AmpR VIYTTGSQATMDERNRQIAE 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 g a 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 c t

2100 280 285 IGASLIKHW* AmpR IGASLIKHW* 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 t 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 a a

2160 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 t 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 a t

2220 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 g 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 t c

2280 ori 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 a a 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 t t

2340 ori 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 a a

2400 ori 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 g c 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 c g

2460 ori 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 a a 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 t t

2520 ori 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 a a 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 t t

2580 ori 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 g c 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 c g

2640 ori 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 a a 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 t t

2700 ori 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 a a 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 t t

2760 ori G G G A A A C G C C T G G T A T C T T T pBR322ori-F 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 c g 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 g c

2820 ori 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 c 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 g g

2880 ori 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 t 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 a c

PciI 2940 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 t g 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 a c

3000 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 g g 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 c c

3060 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 a t 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 t a

3120 AAV2 ITR g c a g c t g c g c g c t c g c t c g c t c a c t g a g g c c g c c c g g g c a a a g c c c g g g c g t c g g g c g a c c g t c g a c g c g c g a g c g a g c g a g t g a c t c c g g c g g g c c c g t t t c g g g c c c g c a g c c c g c t g

3180 AAV2 ITR c t t t g g t c g c c c g g c c t c a g t g a g c g a g c g a g c g c g c a g a g a g g g a g t g g c c a a c t c c a t g a a a c c a g c g g g c c g g a g t c a c t c g c t c g c t c g c g c g t c t c t c c c t c a c c g g t t g a g g t a

3240 AAV2 ITR c a c t a g 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 g t g a t c 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

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

MfeI 3360 SV40 poly(A) signal c c t c c c a c a t 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 t t g t t g t t a a c t t g g a g g g t g t a 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 c a a c a a c a a t t g a a

3420 SV40 poly(A) signal C G T T A T C G T A G T G T T T A A A G SV40pA-R 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 a a t t t c a c a a a t 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 t t a a a g t g t t t a t t

3480 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 *QMRTTTQGFEDIYRIM * 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 a a t g t a t c t t a t c a 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 t t a c a t a g a a t a g t

EagINotI 3540 WPRE DARLPRGPRRYRHPSAAWLS TQEFRGGPDVTDIRPPPGFP t g t c t g c t c g a a g c g g c c g c c c g g g t c g a c g g t a t c g a t g c g g g g a g g c g g c c c a a a g g g a c a g a c g a g c t t c g c c g g c g g g c c c a g c t g c c a t a g c t a c g c c c c t c c g c c g g g t t t c c c

3600 WPRE IRSTQPRLRLRPLPRLAPLL SGVRRLAFAFVRFLGCLRCC a g a t c c g a c t c g t c t g a g g g c g a a g g c g a a g a c g c g g a a g a g g c c g c a g a g c c g g c a g c a t c t a g g c t g a g c a g a c t c c c g c t t c c g c t t c t g c g c c t t c t c c g g c g t c t c g g c c g t c g t

3660 WPRE 1 IEGR (in frame with Factor Xa site) RDVAEGRP Factor Xa site GRSPLDAPNLASPVYCFSTG AAPLFTRQISPRLSTASPRG g g c c g c g g g a a g g a a g g t c c g c t g g a t t g a g g g c c g a a g g g a c g t a g c a g a a g g a c g t c c c c g g c g c c c t t c c t t c c a g g c g a c c t a a c t c c c g g c t t c c c t g c a t c g t c t t c c t g c a g g

3720 WPRE (in frame with Factor Xa site) AQNPGGNTGEQPRKGR* RLIWTAVCALLWPFSSSKGS ACFGPPLVPSCGLFPRHNGR c g c g c a g a a t c c a g g t g g c a a c a c a g g c g a g c a g c c a a g g a a a g g a c g a t g a t t t c c c c g g c g c g t c t t a g g t c c a c c g t t g t g t c c g c t c g t c g g t t c c t t t c c t g c t a c t a a a g g g g c

3780 WPRE LVVSNDTGLLRAGTWCRALC CCWPITLAWCGLGQGAAPLA a c a a c a c c a c g g a a t t g t c a g t g c c c a a c a g c c g a g c c c c t g t c c a g c a g c g g g c a a g g c t g t t g t g g t g c c t t a a c a g t c a c g g g t t g t c g g c t c g g g g a c a g g t c g t c g c c c g t t c c g

3840 WPRE AAILEATAIPLPFAFTGSLL PPSSNRRPLLSPSLSLGPFS a g g c g g c g a t g a g t t c c g c c g t g g c a a t a g g g a g g g g g a a a g c g a a a g t c c c g g a a a g g a t c c g c c g c t a c t c a a g g c g g c a c c g t t a t c c c t c c c c c t t t c g c t t t c a g g g c c t t t c c t

3900 WPRE QCTTAIGWGTPTADAFVTCV SVPPPLAGVLPPQTLLCLAC g c t g a c a g g t g g t g g c a a t g c c c c a a c c a g t g g g g g t t g c g t c a g c a a a c a c a g t g c a c a c g a c t g t c c a c c a c c g t t a c g g g g t t g g t c a c c c c c a a c g c a g t c g t t t g t g t c a c g t g t

3960 WPRE VGRQRVVPWLEEYLSLLWSK WAVNGSLPGCSRMFLCCGPN c c a c g c c a c g t t g c c t g a c a a c g g g c c a c a a c t c c t c a t a a a g a g a c a g c a a c c a g g a t t g g t g c g g t g c a a c g g a c t g t t g c c c g g t g t t g a g g a g t a t t t c t c t g t c g t t g g t c c t a a

4020 WPRE YLSSFIFAMRSAIAHYLPM ICPPSFSLWVPLLLM t a t a c a a g g a g g a g a a a a t g a a a g c c a t a c g g g a a g c a a t a g c a t g a t a c a a a g g c a t t a a t a t g t t c c t c c t c t t t t a c t t t c g g t a t g c c c t t c g t t a t c g t a c t a t g t t t c c g t a a t

4080 WPRE C A T A G C G T A A A A G G A G C A A C A WPRE-R a a g c a g c g t a t c c a c a t a g c g t a a a a g g a g c a a c a t a g t t a a g a a t a c c a g t c a a t c t t t t t c g t c g c a t a g g t g t a t c g c a t t t t c c t c g t t g t a t c a a t t c t t a t g g t c a g t t a g a a a

HindIIIEcoRVEcoRIBstBI 4140 WPRE c a c a a a t t t t g t a a t c c a g a g g t t g a t t a t c g a t a a g c t t g a t a t c g a a t t c g a a c c t c t g t g t t t a a a a c a t t a g g t c t c c a a c t a a t a g c t a t t c g a a c t a t a g c t t a a g c t t g g a g a

BglII 4200 loxP t c g a g g g a c 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 g g t c g a t g g t g a g a t c a g c t c c c t g 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 c c a g c t a c c a c t c t a g

4260 lox2272 t g g a c t a g a g g g t c g a t g g t g a t g c t t g g a t c a a a a t a g g a a g a a t c c c a a t g a t a a c t t a c c t g a t c t c c c a g c t a c c a c t a c g a a c c t a g t t t t a t c c t t c t t a g g g t t a c t a t t g a a

4320 lox2272 MLQNEL c g t a t a a a g t a t c c t a t a c g a a g t t a t a c t a g g a t c c g c c a c c a t g c t g c a g a a c g a g c t g c a t a t t t c a t a g g a t a t g c t t c a a t a t g a t c c t a g g c g g t g g t a c g a c g t c t t g c t c g a

AflII 4380 1 HHHH 6xHis ALKLAGLDINKTGGGSHHHH t g c t c t t a a g t t g g c t g g a c t t g a t a t t a a c a a g a c t g g a g g a g g t t c t c a t c a t c a t c a a c g a g a a t t c a a c c g a c c t g a a c t a t a a t t g t t c t g a c c t c c t c c a a g a g t a g t a g t a g t

BmtINheI 4440 5 HH G 1 5 10 MASMTGGQQMG R 1 DLY 5 enterok... DD 6xHis T7 tag (gene 10 leader) Xpress™ tag HHGMASMTGGQQMGRDLYDD t c a t c a t g g t a t g g c t a g c a t g a c t g g t g g a c a g c a a a t g g g t c g g g a t c t g t a c g a c g a a g t a g t a c c a t a c c g a t c g t a c t g a c c a c c t g t c g t t t a c c c a g c c c t a g a c a t g c t g c t

4500 enterokinase site DDK (in frame with Xpress™ tag) DLATMVDSS 1 5 RRKWNKTG Xpress™ tag calmodulin-binding peptide DDKDLATMVDSSRRKWNKTG t g a c g a t a a g g a t c t c g c a a c a a t g g t c g a c t c a t c a c g t c g t a a g t g g a a t a a g a c a g g a c t g c t a t t c c t a g a g c g t t g t t a c c a g c t g a g t a g t g c a g c a t t c a c c t t a t t c t g t c c

Eco53kISacI 4560 10 15 HAVRAIGRLSS (in frame with calmodulin-binding peptide) AINCEMMYP calmodulin-binding peptide HAVRAIGRLSSAINCEMMYP t c a c g c a g t c a g a g c t a t a g g t c g g c t g a g c t c a g c g a t c a a c t g c g a a a t g a t g t a c c c a g t g c g t c a g t c t c g a t a t c c a g c c g a c t c g a g t c g c t a g t t g a c g c t t t a c t a c a t g g g

BstEII 4620 (in frame with calmodulin-binding peptide) ADGGLRGYTHMALKVDGGGH ADGGLRGYTHMALKVDGGGH a g c g g a t g g t g g t c t g c g t g g t t a c a c t c a c a t g g c g c t g a a a g t t g a t g g c g g c g g t c a t c g c c t a c c a c c a g a c g c a c c a a t g t g a g t g t a c c g c g a c t t t c a a c t a c c g c c g c c a g t

4680 (in frame with calmodulin-binding peptide) LSCSFVTTYRSKKTVGNIKM LSCSFVTTYRSKKTVGNIKM c c t g t c c t g t t c t t t c g t g a c c a c c t a c c g c t c c a a a a a g a c t g t c g g c a a c a t t a a g a t g g a c a g g a c a a g a a a g c a c t g g t g g a t g g c g a g g t t t t t c t g a c a g c c g t t g t a a t t c t a

4740 (in frame with calmodulin-binding peptide) PAIHSVSHRLERLEESDNEM PAIHSVSHRLERLEESDNEM g c c t g c c a t t c a t a g c g t c a g c c a c c g t c t g g a g c g c c t g g a g g a g a g c g a t a a c g a a a t c g g a c g g t a a g t a t c g c a g t c g g t g g c a g a c c t c g c g g a c c t c c t c t c g c t a t t g c t t t a

Acc65I 4800 (in frame with calmodulin-binding peptide) FVVQREHAVAKFVGLGGGGG FVVQREHAVAKFVGLGGGGG g t t t g t c g t a c a g c g t g a a c a c g c a g t t g c c a a g t t t g t g g g c c t g g g t g g t g g c g g c g g c a a a c a g c a t g t c g c a c t t g t g c g t c a a c g g t t c a a a c a c c c g g a c c c a c c a c c g c c g c c

KpnI 4860 (in frame with calmodulin-binding peptide) TGGSMNSLIKENMRMKVVLE TGGSMNSLIKENMRMKVVLE t a c c g g a g g g a g c a t g a a c t c c c t g a t c a a g g a g a a c a t g c g t a t g a a a g t g g t t c t g g a a t g g c c t c c c t c g t a c t t g a g g g a c t a g t t c c t c t t g t a c g c a t a c t t t c a c c a a g a c c t

4920 (in frame with calmodulin-binding peptide) GSVNGHQFKCTGEGEGNPYM GSVNGHQFKCTGEGEGNPYM a g g c t c c g t a a a c g g c c a c c a g t t c a a a t g c a c t g g t g a a g g c g a a g g c a a c c c g t a t a t t c c g a g g c a t t t g c c g g t g g t c a a g t t t a c g t g a c c a c t t c c g c t t c c g t t g g g c a t a t a

4980 (in frame with calmodulin-binding peptide) GTQTMRIKVIEGGPLPFAFD GTQTMRIKVIEGGPLPFAFD g g g c a c c c a g a c t a t g c g t a t c a a a g t g a t c g a g g g t g g t c c g c t g c c g t t t g c g t t c g a c c c g t g g g t c t g a t a c g c a t a g t t t c a c t a g c t c c c a c c a g g c g a c g g c a a a c g c a a g c t

5040 (in frame with calmodulin-binding peptide) ILATSFMYGSRTFIKYPKGI ILATSFMYGSRTFIKYPKGI c a t c c t g g c g a c g t c c t t t a t g t a t g g c t c c c g t a c c t t c a t c a a a t a t c c g a a a g g c a t g t a g g a c c g c t g c a g g a a a t a c a t a c c g a g g g c a t g g a a g t a g t t t a t a g g c t t t c c g t a

5100 (in frame with calmodulin-binding peptide) PDFFKQSFPEGFTWERVTRY PDFFKQSFPEGFTWERVTRY c c c g g a t t t c t t t a a g c a g t c c t t c c c g g a a g g t t t t a c c t g g g a a c g t g t g a c c c g t t a g g g c c t a a a g a a a t t c g t c a g g a a g g g c c t t c c a a a a t g g a c c c t t g c a c a c t g g g c a a t

BsmBIEsp3I 5160 (in frame with calmodulin-binding peptide) EDGGVITVMQDTSLEDGCLV EDGGVITVMQDTSLEDGCLV c g a a g a c g g c g g c g t a a t t a c c g t t a t g c a a g a c a c g t c t c t g g a g g a t g g c t g c c t g g t g c t t c t g c c g c c g c a t t a a t g g c a a t a c g t t c t g t g c a g a g a c c t c c t a c c g a c g g a c c a

BspMIBfuAI 5220 (in frame with calmodulin-binding peptide) YHVQVRGVNFPSNGAVMQKK YHVQVRGVNFPSNGAVMQKK g t a t c a c g t g c a g g t t c g c g g t g t g a a c t t c c c g a g c a a t g g t g c t g t a a t g c a a a a g a a c a t a g t g c a c g t c c a a g c g c c a c a c t t g a a g g g c t c g t t a c c a c g a c a t t a c g t t t t c t t

5280 (in frame with calmodulin-binding peptide) TKGWEPTDSQTTEEQIAEFK TKGWEPTDSQTTEEQIAEFK a a c c a a a g g t t g g g a g c c t a c g g a c t c c c a a a c c a c t g a a g a g c a g a t c g c a g a a t t t a a t t g g t t t c c a a c c c t c g g a t g c c t g a g g g t t t g g t g a c t t c t c g t c t a g c g t c t t a a a t t

5340 (in frame with calmodulin-binding peptide) EAFSLFDKDGDGTITTKELG EAFSLFDKDGDGTITTKELG a g a g g c t t t c t c c c t a t t t g a c a a g g a c g g g g a t g g g a c a a t a a c a a c c a a g g a g c t g g g t c t c c g a a a g a g g g a t a a a c t g t t c c t g c c c c t a c c c t g t t a t t g t t g g t t c c t c g a c c c

5400 (in frame with calmodulin-binding peptide) TVMRSLGQNPTEAELQDMIN TVMRSLGQNPTEAELQDMIN g a c g g t g a t g c g g t c t c t g g g g c a g a a c c c c a c a g a a g c a g a g c t g c a g g a c a t g a t c a a c t g c c a c t a c g c c a g a g a c c c c g t c t t g g g g t g t c t t c g t c t c g a c g t c c t g t a c t a g t t

5460 (in frame with calmodulin-binding peptide) EVDADGDGTIDFPEFLIMMA EVDADGDGTIDFPEFLIMMA t g a a g t a g a t g c c g a c g g t g a c g g c a c a a t c g a c t t c c c t g a g t t c c t g a t t a t g a t g g c a c t t c a t c t a c g g c t g c c a c t g c c g t g t t a g c t g a a g g g a c t c a a g g a c t a a t a c t a c c g

5520 (in frame with calmodulin-binding peptide) RKMKYTDSEEEIREAFGVFD RKMKYTDSEEEIREAFGVFD a a g a a a a a t g a a a t a c a c a g a c a g t g a a g a a g a a a t t a g a g a a g c g t t c g g c g t g t t t g a t t c t t t t t a c t t t a t g t g t c t g t c a c t t c t t c t t t a a t c t c t t c g c a a g c c g c a c a a a c t

5580 (in frame with calmodulin-binding peptide) KDGNGYISAAELRHVMTNLG KDGNGYISAAELRHVMTNLG t a a g g a t g g c a a t g g c t a c a t c a g t g c a g c a g a g c t t c g c c a c g t g a t g a c a a a c c t t g g a t t c c t a c c g t t a c c g a t g t a g t c a c g t c g t c t c g a a g c g g t g c a c t a c t g t t t g g a a c c

5640 (in frame with calmodulin-binding peptide) EKLTDEEVDEMIREADSDGD EKLTDEEVDEMIREADSDGD a g a g a a g t t a a c a g a t g a a g a g g t t g a t g a a a t g a t c a g g g a a g c a g a c a g c g a t g g g g a t c t c t t c a a t t g t c t a c t t c t c c a a c t a c t t t a c t a g t c c c t t c g t c t g t c g c t a c c c c t

BsrGI 5700 (in frame with calmodulin-binding peptide) GQVNYEEFVQMMTAK* loxP GQVNYEEFVQMMTAK* t g g t c a g g t a a a c t a c g a a g a g t t t g t a c a a a t g a t g a c a g c g a a g t g a a a g c t c t a g t a a c c a g t c c a t t t g a t g c t t c t c a a a c a t g t t t a c t a c t g t c g c t t c a c t t t c g a g a t c a t

5760 loxP t a a c t t c g t a t a g c a t a c a t t a t a c g a a g t t a t g g g t c g a t g g t g a t g c t t g g c a a t t c g a t t g a a g c a t a t c g t a t g t a a t a t g c t t c a a t a c c c a g c t a c c a c t a c g a a c c g t t a a g c

5820 lox2272 g g t c g a t g g t g a a g c a t t g g t c t t c c t a t t t t g a t 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 c a g c t a c c a c t t c g t a a c c a g a a g g a t a a a a c t a 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

5880 lox2272 G T G T T A T T G G T C G T G C A pCAG-F c g a a g t t a t g g g g a t c c a a t t c t t t g c c a a a a t g a t g a g a c a g c a c a a t a a c c a g c a c g t g c t t c a a t a c c c c t a g g t t a a g a a a c g g t t t t a c t a c t c t g t c g t g t t a t t g g t c g t g c a

XbaI 5940 A C G pCAG-F t g c c c a g g a g c t g t a g g a a a a a g a a g a a g g c a t g a a c a t g g t t a g c a g a g g c t c t a g a g c a c g g g t c c t c g a c a t c c t t t t t c t t c t t c c g t a c t t g t a c c a a t c g t c t c c g a g a t c t c g

6000 C C A G T G T G C G G T C T T C G G C T T G G pCAGGS-5 c g c c g g t c a c a c g c c a g a a g c c g a a c c c c g c c c t g c c c c g t c c c c c c c g a a g g c a g c c g t g c g g c c a g t g t g c g g t c t t c g g c t t g g g g c g g g a c g g g g c a g g g g g g g c t t c c g t c g g c a

PspOMIApaI 6060 c c c c c c g c g g a c a g c c c c g a g c c g c t c c c c c c g c a c a a a g g g c c c t c c c g g a g c c c c t c a g g g g g g c g c c t g t c g g g g c t c g g c g a g g g g g g c g t g t t t c c c g g g a g g g c c t c g g g g a g t

AfeI 6120 a g g c t t t c a c g c a g c c a c a g a a a a g a a a c a a g c c g t c a t t a a a c c a a g c g c t a a t t a c a g t c c g a a a g t g c g t c g g t g t c t t t t c t t t g t t c g g c a g t a a t t t g g t t c g c g a t t a a t g t c

6180 c c c g g a g g a g a a g g g c c g t c c c g c c c g c t c a c c t g t g g g a g t a a c g c g g t c a g t c a g a g c g g g c c t c c t c t t c c c g g c a g g g c g g g c g a g t g g a c a c c c t c a t t g c g c c a g t c a g t c t c g

6240 c g g g g c g g g c g g c g c g a g g c g g c g g c g g a g c g g g g c a c g g g g c g a a g g c a g c g c g c a g c g g c c c c g c c c g c c g c g c t c c g c c g c c g c c t c g c c c c g t g c c c c g c t t c c g t c g c g c g t c g c

6300 a c t c c c g c c c g c c g c g c g c t t c g c t t t t t a t a g g g c c g c c g c c g c c g c c g c c t c g c c a t a t g a g g g c g g g c g g c g c g c g a a g c g a a a a a t a t c c c g g c g g c g g c g g c g g c g g a g c g g t a t

End (6357) 3Ęą 5Ęą 6357 a a a g g a a a c t t t c g g a g c g c g c c g c t c t g a t t g g c t g c c g c c g c a c c t c t c c g c c t c t t t c c t t t g a a a g c c t c g c g c g g c g a g a c t a a c c g a c g g c g g c g t g g a g a g g c g g a g

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.