Addgene pAAV-CaMKIIa-hChR2(E123A)-mCherry Sequencing Result - Sequence Analyzer Skip to main content
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Sequence Analyzer: pAAV-CaMKIIa-hChR2(E123A)-mCherry Sequencing Result


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BlpI (6907) NsiI (6898) hGH-PA-R (6779 .. 6798) AfeI (6561) SacII (6463) BspEI (6233) WPRE-R (6013 .. 6033) HindIII (5948) EcoRI (5936) BsrGI (5925) XcmI (5911) SgrAI (5906) mCherry-F (5638 .. 5657) mCherry-R (5370 .. 5388) PshAI (5183) BstAPI (4642) AgeI (4277) BamHI (4265) NruI (4132) PpuMI * (4108) PaqCI (4034) BclI * (3882) BspQI - SapI (3868) PmlI (56) RsrII (61) F1ori-R (378 .. 397) F1ori-F (588 .. 609) PsiI (649) pRS-marker (763 .. 782) PfoI (881) pGEX 3' (882 .. 904) pBRforEco (942 .. 960) XmnI (1320) Amp-R (1351 .. 1370) ScaI (1439) PvuI (1551) FspI (1697) AseI (1745) pBR322ori-F (2653 .. 2672) PciI (2808) MluI (2952) EcoNI (3357) BsmI (3459) pAAV-CaMKIIa-hChR2(E123A)-mCherry 7020 bp

Sequence View

PmlI 5ʹ 3ʹ 60 hGH poly(A) signal t t a c a g g c g t g a a c c a c t g c t c c c t t c c c t g t c c t t c t g a t t t t g t a g g t a a c c a c g t g c a a t g t c c g c a c t t g g t g a c g a g g g a a g g g a c a g g a a g a c t a a a a c a t c c a t t g g t g c a c g

RsrII 120 AAV2 ITR AAV2 ITR g g a c c g a g c g g c c g c a g g a a c c c c t a g t g a t g g a g t t g g c c a c t c c c t c t c t g c g c g c t c c c t g g c t c g c c g g c g t c c t t g g g g a t c a c t a c c t c a a c c g g t g a g g g a g a g a c g c g c g a g

180 AAV2 ITR AAV2 ITR g c t c g c t c a c t g a g g c c g g g c g a c c a a a g g t c g c c c g a c g c c c g g g c t t t g c c c g g g c g g c g a g c g a g t g a c t c c g g c c c g c t g g t t t c c a g c g g g c t g c g g g c c c g a a a c g g g c c c g c c

240 AAV2 ITR AAV2 ITR 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 c t g c a g g g g c g c c t g a t g c g g t a t t t t c t 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 g a c g t c c c c g c g g a c t a c g c c a t a a a a g a g g

300 f1 ori 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 c g t c a a a g c a a c c a t a g t a c g c g c c c t 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 g c a g t t t c g t t g g t a t c a t g c g c g g g a c

360 f1 ori 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 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 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 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

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

480 f1 ori 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 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 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 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

540 f1 ori 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 t g g g t g a t g g t t c a c g t a g t g g g c c a t c g c c c t g 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 a c c c a c t a c c a a g t g c a t c a c c c g g t a g c g g g a c

600 f1 ori G T G G A C T C T T G T T F1ori-F 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 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 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 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

PsiI 660 f1 ori C C A A A C T G G F1ori-F c c a a a c t g g a a c a a c a c t c a a c t c t a t c t c g g g 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 g t t t g a c c t t g t t g t g a g t t g a g a t a g a g c c c 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

720 f1 ori g c c g a t t t c g g t c t a t t g g t t a a a a a a t g a g c t g a t t t a a c a a a a a t t t a a c g c g a a t t t c g g c t a a a g c c a g a t a a c c a a t t t t t t a c t c g a c t a a a t t g t t t t t a a a t t g c g c t t a a a

780 f1 ori A T G T T A G A C G A G A C T A C G pRS-marker t a a c a a a a t a t t a a c g t t t a c a a t t t t a t g g t g c a c t c t c a g t a c a a t c t g c t c t g a t g c a t t g t t t t a t a a t t g c a a a t g t t a a a a t a c c a c g t g a g a g t c a t g t t a g a c g a g a c t a c g

840 G C pRS-marker 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 c g c g c c c t g a c g g g c t t 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 g c g c g g g a c t g c c c g a a c

PfoI 900 C C G G G A G C T G C A T G T G T C A pGEX 3' 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 c g g g a g c t g c a t g t g t c a 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 g c c c t c g a c g t a c a c a g t

960 G A G G pGEX 3' C G G A G C A C T A T G C G G A T A A pBRforEco 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 c c t c g t g a t a c g c c t a t 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 g g a g c a c t a t g c g g a t a a

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

1080 AmpR promoter 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 t a t g t a t c c g c t 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 a t a c a t a g g c g a

1140 1 signal sequence MSI AmpR promoter AmpR MSI 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 g a g t a t g a g t a t 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 c t c a t a c t c a t a

1200 5 10 15 20 signal sequence QHFRVALIPFFAAFCLPVFA AmpR QHFRVALIPFFAAFCLPVFA 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 g c c t t c c t g t t t t t g c 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 c g g a a g g a c a a a a a c g

1260 25 30 35 40 HPETLVKVKDAEDQLGARVG AmpR HPETLVKVKDAEDQLGARVG 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 t g g g t g c a c g a g t g g 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 a c c c a c g t g c t c a c c c

XmnI 1320 45 50 55 60 YIELDLNSGKILESFRPEER AmpR YIELDLNSGKILESFRPEER 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 t t c g c c c c g a a g a a c g 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 a a g c g g g g c t t c t t g c

1380 65 70 75 80 FPMMSTFKVLLCGAVLSRID AmpR C G A T A C A C C G C G C C A T A A T A Amp-R FPMMSTFKVLLCGAVLSRID 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 t a t t a t c c c g t a t t g a 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 a t a a t a g g g c a t a a c t

ScaI 1440 85 90 95 100 AGQEQLGRRIHYSQNDLVEY AmpR AGQEQLGRRIHYSQNDLVEY 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 g a c t t g g t t g a g t a 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 t a c t g a a c c a a c t c a t

1500 105 110 115 120 SPVTEKHLTDGMTVRELCSA AmpR SPVTEKHLTDGMTVRELCSA 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 g a g a a t t a t g c a g t g c 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 c t c t t a a t a c g t c a c g

PvuI 1560 125 130 135 140 AITMSDNTAANLLLTTIGGP AmpR AITMSDNTAANLLLTTIGGP 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 a a c g a t c g g a g g a c c 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 g t t g c t a g c c t c c t g g

1620 145 150 155 160 KELTAFLHNMGDHVTRLDRW AmpR KELTAFLHNMGDHVTRLDRW 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 c t c g c c t t g a t c g t t 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 g a g c g g a a c t a g c a a c

1680 165 170 175 180 EPELNEAIPNDERDTTMPVA AmpR EPELNEAIPNDERDTTMPVA 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 c c a c g a t g c c t g t a g 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 g g t g c t a c g g a c a t c g

FspI 1740 185 190 195 200 MATTLRKLLTGELLTLASRQ AmpR MATTLRKLLTGELLTLASRQ 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 c t c t a g c t t c c c g g c a 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 g a g a t c g a a g g g c c g t

AseI 1800 205 210 215 220 QLIDWMEADKVAGPLLRSAL AmpR QLIDWMEADKVAGPLLRSAL 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 t t c t g c g c t c g g c c c 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 a a g a c g c g a g c c g g g a

1860 225 230 235 240 PAGWFIADKSGAGERGSRGI AmpR PAGWFIADKSGAGERGSRGI 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 g t g g g t c t c g c g g t a t 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 c a c c c a g a g c g c c a t a

1920 245 250 255 260 IAALGPDGKPSRIVVIYTTG AmpR IAALGPDGKPSRIVVIYTTG 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 t t a t c t a c a c g a c g g g 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 a a t a g a t g t g c t g c c c

1980 265 270 275 280 SQATMDERNRQIAEIGASLI AmpR SQATMDERNRQIAEIGASLI 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 t a g g t g c c t c a c t g a t 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 a t c c a c g g a g t g a c t a

2040 285 KHW* AmpR KHW* 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 g a t t g a t t t a a a a c t 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 t c t a a c t a a a t t t t g a

2100 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 a t c t c a t g a c c a a a a t 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 t a g a g t a c t g g t t t t a

2160 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 a a a a g a t c a a a g g a t c 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 t t t t c t a g t t t c c t a g

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

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

2340 ori 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 c g t a g t t a g g c c a c c a 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 g c a t c a a t c c g g t g g t

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

2460 ori 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 g a c g a t a g t t a c c g g a 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 c t g c t a t c a a t g g c c t

2520 ori 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 c a g c t t g g a g c g a a c 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 g g t c g a a c c t c g c t t g

2580 ori 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 c g c c a c g c t t c c c g a 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 c g c g g t g c g a a g g g c t

2640 ori 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 a g g a g a g c g c a c g a g 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 g t c c t c t c g c g t g c t c

2700 ori G G G A A A C G C C T G G T A T C T T T pBR322ori-F 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 g t t t c g c c a c c t c t g 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 c c a a a g c g g t g g a g a c

2760 ori 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 t a t g g a a a a a c g c c a g 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 a t a c c t t t t t g c g g t c

PciI 2820 AAV2 ITR (alternate) 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 c t c a c a t g t c c t g c a g 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 g a g t g t a c a g g a c g t c

2880 AAV2 ITR (alternate) 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 g t c g g g c g a c c t t t g g t c g c 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 c a g c c c g c t g g a a a c c a g c g g

2940 AAV2 ITR (alternate) c g g c c t c a g t g a g c g a g c g a g c g c g c a g a g a g g g a g t g g c c a a c t c c a t c a c t a g g g g t t g c c g g a g t c a c t c g c t c g c t c g c g c g t c t c t c c c t c a c c g g t t g a g g t a g t g a t c c c c a a

MluI 3000 AAV2 ITR (alternate) CaMKII promoter c c t g c g g c c g c a c g c g t t t a a c a t t a t g g c c t t a g g t c a c t t c a t c t c c a t g g g g t t c t t g g a c g c c g g c g t g c g c a a a t t g t a a t a c c g g a a t c c a g t g a a g t a g a g g t a c c c c a a g a a

3060 CaMKII promoter c t t c t g a t t t t c t a g a a a a t g a g a t g g g g g t g c a g a g a g c t t c c t c a g t g a c c t g c c c a g g a a g a c t a a a a g a t c t t t t a c t c t a c c c c c a c g t c t c t c g a a g g a g t c a c t g g a c g g g t c

3120 CaMKII promoter g g t c a c a t c a g a a a t g t c a g a g c t a g a a c t t g a a c t c a g a t t a c t a a t c t t a a a t t c c a t c c a g t g t a g t c t t t a c a g t c t c g a t c t t g a a c t t g a g t c t a a t g a t t a g a a t t t a a g g t a

3180 CaMKII promoter g c c t t g g g g g c a t g c a a g t a c g a t a t a c a g a a g g a g t g a a c t c a t t a g g g c a g a t g a c c a c g g a a c c c c c g t a c g t t c a t g c t a t a t g t c t t c c t c a c t t g a g t a a t c c c g t c t a c t g g t

3240 CaMKII promoter a t g a g t t t a g g a a a g a a g a g t c c a g g g c a g g g t a c a t c t a c a c c a c c c g c c c a g c c c t g g t a c t c a a a t c c t t t c t t c t c a g g t c c c g t c c c a t g t a g a t g t g g t g g g c g g g t c g g g a c c

3300 CaMKII promoter g t g a g t c c a g c c a c g t t c a c c t c a t t a t a g t t g c c t c t c t c c a g t c c t a c c t t g a c g g g a c a c t c a g g t c g g t g c a a g t g g a g t a a t a t c a a c g g a g a g a g g t c a g g a t g g a a c t g c c c t

EcoNI 3360 CaMKII promoter a g c a c a a g c a g a a a c t g g g a c a g g a g c c c c a g g a g a c c a a a t c t t c a t g g t c c c t c t g g g t c g t g t t c g t c t t t g a c c c t g t c c t c g g g g t c c t c t g g t t t a g a a g t a c c a g g g a g a c c c

3420 CaMKII promoter a g g a t g g g t g g g g a g a g c t g t g g c a g a g g c c t c a g g a g g g g c c c t g c t g c t c a g t g g t g a t c c t a c c c a c c c c t c t c g a c a c c g t c t c c g g a g t c c t c c c c g g g a c g a c g a g t c a c c a c t

BsmI 3480 CaMKII promoter c a g a t a g g g g t g a g a a a g c a g a c a g a g t c a t t c c g t c a g c a t t c t g g g t c t g t t t g g t a c g t c t a t c c c c a c t c t t t c g t c t g t c t c a g t a a g g c a g t c g t a a g a c c c a g a c a a a c c a t g

3540 CaMKII promoter t t c t t c t c a c g c t a a g g t g g c g g t g t g a t a t g c a c a a t g g c t a a a a a g c a g g g a g a g c t g a a g a a g a g t g c g a t t c c a c c g c c a c a c t a t a c g t g t t a c c g a t t t t t c g t c c c t c t c g a c

3600 CaMKII promoter g a a a g a a a c a a g g a c a g a g a c a g a g g c c a a g t c a a c c a g a c c a a t t c c c a g a g g a a g c a a c t t t c t t t g t t c c t g t c t c t g t c t c c g g t t c a g t t g g t c t g g t t a a g g g t c t c c t t c g t t

3660 CaMKII promoter a g a a a c c a t t a c a g a g a c t a c a a g g g g g a a g g g a a g g a g a g a t g a a t t a g c t t c c c c t g t t c t t t g g t a a t g t c t c t g a t g t t c c c c c t t c c c t t c c t c t c t a c t t a a t c g a a g g g g a c a

3720 CaMKII promoter a a a c c t t a g a a c c c a g c t g t t g c c a g g g c a a c g g g g c a a t a c c t g t c t c t t c a g a g g a g a t t t g g a a t c t t g g g t c g a c a a c g g t c c c g t t g c c c c g t t a t g g a c a g a g a a g t c t c c t c t

3780 CaMKII promoter t g a a g t t g c c a g g g t a a c t a c a t c c t g t c t t t c t c a a g g a c c a t c c c a g a a t g t g g c a c c a c t t c a a c g g t c c c a t t g a t g t a g g a c a g a a a g a g t t c c t g g t a g g g t c t t a c a c c g t g g

3840 CaMKII promoter c a c t a g c c g t t a c c a t a g c a a c t g c c t c t t t g c c c c a c t t a a t c c c a t c c c g t c t g t t a a g t g a t c g g c a a t g g t a t c g t t g a c g g a g a a a c g g g g t g a a t t a g g g t a g g g c a g a c a a t t

BclI*BspQISapI 3900 CaMKII promoter a a g g g c c c t a t a g t t g g a g g t g g g g g a g g t a g g a a g a g c g a t g a t c a c t t g t g g a c t a a g t t c c c g g g a t a t c a a c c t c c a c c c c c t c c a t c c t t c t c g c t a c t a g t g a a c a c c t g a t t c

3960 CaMKII promoter t t t g t t c g c a t c c c c t t c t c c a a c c c c c t c a g t a c a t c a c c c t g g g g g a a c a g g g t c c a c a a a c a a g c g t a g g g g a a g a g g t t g g g g g a g t c a t g t a g t g g g a c c c c c t t g t c c c a g g t g

4020 CaMKII promoter t t g c t c c t g g g c c c a c a c a g t c c t g c a g t a t t g t g t a t a t a a g g c c a g g g c a a a g a g g a g a a c g a g g a c c c g g g t g t g t c a g g a c g t c a t a a c a c a t a t a t t c c g g t c c c g t t t c t c c t c

PaqCI 4080 CaMKII promoter c a g g t t t t a a a g t g a a a g g c a g g c a g g t g t t g g g g a g g c a g t t a c c g g g g c a a c g g g a a c g t c c a a a a t t t c a c t t t c c g t c c g t c c a c a a c c c c t c c g t c a a t g g c c c c g t t g c c c t t g

NruIPpuMI* 4140 CaMKII promoter a g g g c g t t t c g g a g g t g g t t g c c a t g g g g a c c t g g a t g c t g a c g a a g g c t c g c g a g g c t g t c c c g c a a a g c c t c c a c c a a c g g t a c c c c t g g a c c t a c g a c t g c t t c c g a g c g c t c c g a c

4200 CaMKII promoter t g a g c a g c c a c a g t g c c c t g c t c a g a a g c c c c a a g c t c g t c a g t c a a g c c g g t t c t c c g t a c t c g t c g g t g t c a c g g g a c g a g t c t t c g g g g t t c g a g c a g t c a g t t c g g c c a a g a g g c a

4260 CaMKII promoter t t g c a c t c a g g a g c a c g g g c a g g c g a g t g g c c c c t a g t t c t g g g g g c a g c t c t a g a g c g g a a c g t g a g t c c t c g t g c c c g t c c g c t c a c c g g g g a t c a a g a c c c c c g t c g a g a t c t c g c c

AgeIBamHI 4320 1 5 10 MDYGGALSAVG ChR2(H134R) Kozak sequence MDYGGALSAVG t a c c g g a t c c c c g g g t a c c g g t g c c a c c a t g g a t t a t g g a g g c g c t t t g t c t g c c g t c g g a t g g c c t a g g g g c c c a t g g c c a c g g t g g t a c c t a a t a c c t c c g c g a a a c a g a c g g c a g c c

4380 15 20 25 30 RELLFVTNPVVVNGSVLVPE ChR2(H134R) RELLFVTNPVVVNGSVLVPE a c g c g a a c t t t t g t t c g t t a c t a a t c c t g t g g t g g t g a a c g g g t c c g t c c t g g t c c c t g a t g c g c t t g a a a a c a a g c a a t g a t t a g g a c a c c a c c a c t t g c c c a g g c a g g a c c a g g g a c t

4440 35 40 45 50 DQCYCAGWIESRGTNGAQTA ChR2(H134R) DQCYCAGWIESRGTNGAQTA g g a t c a a t g t t a c t g t g c c g g a t g g a t t g a a t c t c g c g g c a c g a a c g g c g c t c a g a c c g c c c t a g t t a c a a t g a c a c g g c c t a c c t a a c t t a g a g c g c c g t g c t t g c c g c g a g t c t g g c g

4500 55 60 65 70 SNVLQWLAAGFSILLLMFYA ChR2(H134R) SNVLQWLAAGFSILLLMFYA g t c a a a t g t c c t g c a g t g g c t t g c a g c a g g a t t c a g c a t t t t g c t g c t g a t g t t c t a t g c c a g t t t a c a g g a c g t c a c c g a a c g t c g t c c t a a g t c g t a a a a c g a c g a c t a c a a g a t a c g

4560 75 80 85 90 YQTWKSTCGWEEIYVCAIEM ChR2(H134R) YQTWKSTCGWEEIYVCAIEM c t a c c a a a c c t g g a a a t c t a c a t g c g g c t g g g a g g a g a t c t a t g t g t g c g c c a t t g a a a t g a t g g t t t g g a c c t t t a g a t g t a c g c c g a c c c t c c t c t a g a t a c a c a c g c g g t a a c t t t a

4620 95 100 105 110 VKVILEFFFEFKNPSMLYLA ChR2(H134R) VKVILEFFFEFKNPSMLYLA g g t t a a g g t g a t t c t c g a g t t c t t t t t t g a g t t t a a g a a t c c c t c t a t g c t c t a c c t t g c c c a a t t c c a c t a a g a g c t c a a g a a a a a a c t c a a a t t c t t a g g g a g a t a c g a g a t g g a a c g

BstAPI 4680 115 120 125 130 TGHRVQWLRYAAWLLTCPVI ChR2(H134R) TGHRVQWLRYAAWLLTCPVI c a c a g g a c a c c g g g t g c a g t g g c t g c g c t a t g c a g c c t g g c t g c t c a c t t g t c c t g t c a t g t g t c c t g t g g c c c a c g t c a c c g a c g c g a t a c g t c g g a c c g a c g a g t g a a c a g g a c a g t a

4740 135 140 145 150 LIHLSNLTGLSNDYSRRTMG ChR2(H134R) LIHLSNLTGLSNDYSRRTMG c c t t a t c c a c c t g a g c a a c c t c a c c g g c c t g a g c a a c g a c t a c a g c a g g a g a a c c a t g g g g g a a t a g g t g g a c t c g t t g g a g t g g c c g g a c t c g t t g c t g a t g t c g t c c t c t t g g t a c c c

4800 155 160 165 170 LLVSDIGTIVWGATSAMATG ChR2(H134R) LLVSDIGTIVWGATSAMATG a c t c c t t g t c t c a g a c a t c g g g a c t a t c g t g t g g g g g g c t a c c a g c g c c a t g g c a a c c g g t g a g g a a c a g a g t c t g t a g c c c t g a t a g c a c a c c c c c c g a t g g t c g c g g t a c c g t t g g c c

4860 175 180 185 190 YVKVIFFCLGLCYGANTFFH ChR2(H134R) YVKVIFFCLGLCYGANTFFH c t a t g t t a a a g t c a t c t t c t t t t g t c t t g g a t t g t g c t a t g g c g c g a a c a c a t t t t t t c a g a t a c a a t t t c a g t a g a a g a a a a c a g a a c c t a a c a c g a t a c c g c g c t t g t g t a a a a a a g t

4920 195 200 205 210 AAKAYIEGYHTVPKGRCRQV ChR2(H134R) AAKAYIEGYHTVPKGRCRQV c g c c g c c a a a g c a t a t a t c g a g g g t t a t c a t a c t g t g c c a a a g g g t c g g t g c c g c c a g g t g c g g c g g t t t c g t a t a t a g c t c c c a a t a g t a t g a c a c g g t t t c c c a g c c a c g g c g g t c c a

4980 215 220 225 230 VTGMAWLFFVSWGMFPILFI ChR2(H134R) VTGMAWLFFVSWGMFPILFI c g t g a c c g g c a t g g c a t g g c t g t t t t t c g t g a g c t g g g g t a t g t t c c c a a t t c t c t t c a t g c a c t g g c c g t a c c g t a c c g a c a a a a a g c a c t c g a c c c c a t a c a a g g g t t a a g a g a a g t a

5040 235 240 245 250 LGPEGFGVLSVYGSTVGHTI ChR2(H134R) LGPEGFGVLSVYGSTVGHTI t t t g g g g c c c g a a g g t t t t g g c g t c c t g a g c g t c t a t g g c t c c a c c g t a g g t c a c a c g a t a a a c c c c g g g c t t c c a a a a c c g c a g g a c t c g c a g a t a c c g a g g t g g c a t c c a g t g t g c t a

5100 255 260 265 270 IDLMSKNCWGLLGHYLRVLI ChR2(H134R) IDLMSKNCWGLLGHYLRVLI t a t t g a t c t g a t g a g t a a a a a t t g t t g g g g g t t g t t g g g a c a c t a c c t g c g c g t c c t g a t a t a a c t a g a c t a c t c a t t t t t a a c a a c c c c c a a c a a c c c t g t g a t g g a c g c g c a g g a c t a

5160 275 280 285 290 HEHILIHGDIRKTTKLNIGG ChR2(H134R) HEHILIHGDIRKTTKLNIGG c c a c g a g c a c a t a t t g a t t c a c g g a g a t a t c c g c a a a a c c a c c a a a c t g a a c a t c g g c g g g g t g c t c g t g t a t a a c t a a g t g c c t c t a t a g g c g t t t t g g t g g t t t g a c t t g t a g c c g c c

PshAI 5220 295 300 305 TEIEVETLVEDEAEAGAV PA ChR2(H134R) TEIEVETLVEDEAEAGAVPA a a c g g a g a t c g a g g t c g a g a c t c t c g t c g a a g a c g a a g c c g a g g c c g g a g c c g t g c c a g c t t g c c t c t a g c t c c a g c t c t g a g a g c a g c t t c t g c t t c g g c t c c g g c c t c g g c a c g g t c g

5280 AA 5 10 15 VSKGEEDNMAIIKEFMRF mCherry AAVSKGEEDNMAIIKEFMRF g g c c g c c g t g a g c a a g g g c g a g g a g g a t a a c a t g g c c a t c a t c a a g g a g t t c a t g c g c t t c c g g c g g c a c t c g t t c c c g c t c c t c c t a t t g t a c c g g t a g t a g t t c c t c a a g t a c g c g a a

5340 20 25 30 35 KVHMEGSVNGHEFEIEGEGE mCherry KVHMEGSVNGHEFEIEGEGE c a a g g t g c a c a t g g a g g g c t c c g 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 t t c c a c g t g t a c c t c c c g a g g c 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

5400 40 45 50 55 GRPYEGTQTAKLKVTKGGPL mCherry G G T T C G A C T T C C A C T G G T T mCherry-R GRPYEGTQTAKLKVTKGGPL g g g c 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 c c c g 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

5460 60 65 70 75 PFAWDILSPQFMYGSKAYVK mCherry PFAWDILSPQFMYGSKAYVK g c c c t t c g 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 a g g c c t a c g t g a a c g g g a a g c 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 t c c g g a t g c a c t t

5520 80 85 90 95 HPADIPDYLKLSFPEGFKWE mCherry HPADIPDYLKLSFPEGFKWE g c a c c c c g c c g a c a t c c c c g a c t a c t t g a a g c t 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 c g t g g g g c g g c t g t a g g g g c t g a t g a a c t t c g a 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

5580 100 105 110 115 RVMNFEDGGVVTVTQDSSLQ mCherry RVMNFEDGGVVTVTQDSSLQ g c g c 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 t g g t g a c c g t g a c c c a g g a c t c c t c c c t g c a c g c g 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 a c c a c t g g c a c t g g g t c c t g a g g a g g g a c g t

5640 120 125 130 135 DGEFIYKVKLRGTNFPSDGP mCherry C C C mCherry-F DGEFIYKVKLRGTNFPSDGP g g a c g g c g a g t t c a t c t a c a a g g t g a a g c t g c g c g g c a c c a a c t t c c c c t c c g a c g g c c c c c t g c c g c t c a a g t a g a t g t t c c a c t t c g a c g c g c c g t g g t t g a a g g g g a g g c t g c c g g g

5700 140 145 150 155 VMQKKTMGWEASSERMYPED mCherry C G T A A T G C A G A A G A A G A mCherry-F VMQKKTMGWEASSERMYPED c g t a a t g c a g a a g a a g a c c a t g g g c t g g g a g g c c t c c t c c g a g c g g a t g t a c c c c g a g g a g c a t t a c g t c t t c t t c t g g t a c c c g a c c c t c c g g a g g a g g c t c g c c t a c a t g g g g c t c c t

5760 160 165 170 175 GALKGEIKQRLKLKDGGHYD mCherry GALKGEIKQRLKLKDGGHYD c g g c g c c c t g a a g g g c g a g a t c a a g c a g a g g c t g a a g c t g a a g g a c g g c g g c c a c t a c g a g c c g c g g g a c t t c c c g c t c t a g t t c g t c t c c g a c t t c g a c t t c c t g c c g c c g g t g a t g c t

5820 180 185 190 195 AEVKTTYKAKKPVQLPGAYN mCherry AEVKTTYKAKKPVQLPGAYN c g c t g a g g 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 c t g c c c g g c g c c t a c a a g c g a c t c c 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 g a c g g g c c g c g g a t g t t

5880 200 205 210 215 VNIKLDITSHNEDYTIVEQY mCherry VNIKLDITSHNEDYTIVEQY c g t c a a c a t 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 a t c g t g g a a c a g t a g c a g t t g t a 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 t a g c a c c t t g t c a t

EcoRIBsrGIXcmISgrAI 5940 220 225 230 235 ERAEGRHSTGGMDELYK* mCherry ERAEGRHSTGGMDELYK* c g a a c g c g 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 a a g a a t t g c t t g c g c 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 t t c t t a a

HindIII 6000 WPRE c g a t a t c a a g c 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 g c t a t a g t t c g 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

6060 WPRE A C A A C G A G G A A A A T G C G A T A C WPRE-R MPLY t a t t c t t a a c t 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 a t a a g a a t t g a 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

6120 WPRE HAIASRMAFIFSSLYKSWLL MLLLPVWLSFSPPCINPGC t c a t g c t a t t g 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 a g t a c g a t a a c 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

6180 WPRE SLYEELWPVVRQRGVVCTVF CLFMRSCGPLSGNVAWCALC g t c t c t t t a t g 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 c a g a g a a a t a c 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

BspEI 6240 WPRE ADATPTGWGIATTCQLLSGT LLTQPPLVGALPPPVSSFPE t g c t g a c g c a a 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 a a c a c g a c t g c g t t 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 t t g

6300 WPRE FAFPLPIATAELIAACLARC LSLSPSLLPRRNSSPPALPA t t t c g c t t t c c 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 a a a g c g a a a 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

6360 WPRE *R WTGARLLGTDNSVVLSGKSS AGQGLGCWALTIPWCCRGNH c t g g a c a g g g g 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 a c c t g t c c c c 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

6420 WPRE (in frame with Factor Xa site) GKRPQEGINGGPNQAPRGEA SFPWLLAYVATWILRGTSFC RPFLGCSPMLPPGFCAGRPS g t c c t t t c c t t g g c t g c t c g c c t a 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 a g g a a a g g a a c c g a c g a g c g g a t 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

SacII 6480 WPRE VDR 1 RGEI Factor Xa site YVPSALNPADLPSRGLLPAL ATSLRPSIQRTFLPAACCRL c t a c g t c c c t t 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 a t g c a g g g a a 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

6540 WPRE RPLPRLRLRPQTSRISLWAA CGLFRVFAFALRRVGSPFGP g c g g c c t c t t c 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 g c c g g a g a a g 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

AfeI 6600 WPRE hGH poly(A) signal SPHRYRALLERSTGGIPVTP PPRIDTERCSRDLRVASL* c t c c c c g c a t c g a t a c c g a g c g c t g c t c g a g a g a t c t a c g g g t g g c a t c c c t g t g a c c c c g a g g g g c g t a g c t a t g g c t c g c g a c g a g c t c t c t a g a t g c c c a c c g t a g g g a c a c t g g g g

6660 hGH poly(A) signal PQCLSWPWKLPLQCPPALS* t c c c c a g t g c c t c t c c t g g c c c t g g a a g t t g c c a c t c c a g t g c c c a c c a g c c t t g t c c t a a g g g g t c a c g g a g a g g a c c g g g a c c t t c a a c g g t g a g g t c a c g g g t g g t c g g a a c a g g a t

6720 hGH poly(A) signal a t a a a a t t a a g t t g c a t c a t t t t g t c t g a c t a g g t g t c c t t c t a t a a t a t t a t g g g g t g g t a t t t t a a t t c a a c g t a g t a a a a c a g a c t g a t c c a c a g g a a g a t a t t a t a a t a c c c c a c c

6780 hGH poly(A) signal A G hGH-PA-R a g g g g g g t g g t a t g g a g c a a g g g g c a a g t t g g g a a g a c a a c c t g t a g g g c c t g c g g g g t c t c c c c c c a c c a t a c c t c g t t c c c c g t t c a a c c c t t c t g t t g g a c a t c c c g g a c g c c c c a g

6840 hGH poly(A) signal A T A A C C C T T G G T T C G A C C hGH-PA-R t a t t g g g a a c c a a g c t g g a g t g c a g t g g c a c a a t c t t g g c t c a c t g c a a t c t c c g c c t c c a t a a c c c t t g g t t c g a c c t c a c g t c a c c g t g t t a g a a c c g a g t g a c g t t a g a g g c g g a g g

NsiI 6900 hGH poly(A) signal t g g g t t c a a g c g a t t c t c c t g c c t c a g c c t c c c g a g t t g t t g g g a t t c c a g g c a t g c a t g a c c c a a g t t c g c t a a g a g g a c g g a g t c g g a g g g c t c a a c a a c c c t a a g g t c c g t a c g t a c

BlpI 6960 hGH poly(A) signal a c c a g g c t c a g c t a a t t t t t g t t t t t t t g g t a g a g a c g g g g t t t c a c c a t a t t g g c c a g g t g g t c c g a g t c g a t t a a a a a c a a a a a a a c c a t c t c t g c c c c a a a g t g g t a t a a c c g g t c c

3ʹ 5ʹ 7020 hGH poly(A) signal c t g g t c t c c a a c t c c t a a t c t c a g g t g a t c t a c c c a c c t t g g c c t c c c a a a t t g c t g g g a g a c c a g a g g t t g a g g a t t a g a g t c c a c t a g a t g g g t g g a a c c g g a g g g t t t a a c g a c c 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.