Addgene gRNA_tdtomato_reporter_1_SA-2x - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: gRNA_tdtomato_reporter_1_SA-2x


Map View

CAP binding site PciI (4678) pBR322ori-F (4523 .. 4542) DraIII (3875) FseI (3798) SgrAI (3636) AatII (3568) ZraI (3566) BssHII - MauBI (3558) SfiI (3522) Neo-F (3185 .. 3204) RsrII (3165) BsrDI (2882) PflFI - Tth111I (2767) Neo-R (2575 .. 2594) BclI * (2490) XcmI (2465) M13/pUC Reverse (186 .. 208) lac operator M13 Reverse (205 .. 221) M13 rev SP6 (239 .. 256) SpeI (300) PspXI (414) SV40pA-R (445 .. 464) PsiI (481) HpaI (501) MfeI (510) BsmI (515) SalI (621) AccI (622) BspDI - ClaI (634) NotI (640) NheI (647) BmtI (651) MluI (653) AfeI (753) AleI (771) DsRed1-C (784 .. 807) BbsI (974) mCherry-F (982 .. 1001) SbfI (1062) PshAI (1094) AhdI (1220) mCherry-R (1251 .. 1269) FspAI (1350) FLAG BpmI (1450) LNCX (1473 .. 1497) minimal CMV promoter I-SceI (1585) PspOMI (1678) ApaI (1682) T7 (1690 .. 1709) M13 fwd M13 Forward (1716 .. 1733) M13/pUC Forward (1725 .. 1747) PvuI (1833) SnaBI (1863) ccdB-fwd (2051 .. 2070) gRNA_tdtomato_reporter_1_SA-2x 4803 bp

Sequence View

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

120 CAP binding site a c g a c a g g t t t c c c g a c t g g a a a g c g g g c a g t g a g c g c a a c g c a a t t a a t g t g a g t t a g c t g c t g t c c a a a g g g c t g a c c t t t c g c c c g t c a c t c g c g t t g c g t t a a t t a c a c t c a a t c g

180 -35 -10 CAP binding site lac promoter t c a c t c a t t a g g c a c c c c a g g c t t t a c a c t t t a t g c t t c c g g c t c g t a t g t t g t g t g g a a a g t g a g t a a t c c g t g g g g t c c g a a a t g t g a a a t a c g a a g g c c g a g c a t a c a a c a c a c c t t

240 lac operator M13 rev SP6 promoter A G C G G A T A A C A A T T T C A C A C A G G M13/pUC Reverse C A G G A A A C A G C T A T G A C M13 Reverse A T SP6 t t g t g a g c g g a t a a c a a t t t c a c a c a g g a a a c a g c t a t g a c c a t g a t t a c g c c a a g c t a t a a c a c t c g c c t a t t g t t a a a g t g t g t c c t t t g t c g a t a c t g g t a c t a a t g c g g t t c g a t a

300 SP6 promoter T T A G G T G A C A C T A T A G SP6 t t a g g t g a c a c t a t a g a a t a c t c a a g c t a t g c a t c a a g c t t g g t a c c g a g c t c g g a t c c a a a t c c a c t g t g a t a t c t t a t g a g t t c g a t a c g t a g t t c g a a c c a t g g c t c g a g c c t a g g t

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

PspXI 420 SV40 poly(A) signal 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 a a g c t c g a g g 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 t t c g a g c t c c

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

BsmIMfeIHpaIPsiI 540 SV40 poly(A) signal a t a a g c t g c a a t a a a c a a g t t a a c a a c a a c a a t t g c a t t c a t t t t a t g t t t c a g g t t c a g t a t t c g a c g t t a t t t g t t c a a t t g t t g t t g t t a a c g t a a g t a a a a t a c a a a g t c c a a g t c

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

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

720 * 230 KYLEDMG dTomato *KYLEDMG g c t g a c t a g a g g a t c c c c g g g t a c c g a g c t c g a a t t c t t a c t t g t a c a g c t c g t c c a t g c c g a c t g a t c t c c t a g g g g c c c a t g g c t c g a g c t t a a g a a t g a a c a t g t c g a g c a g g t a c g

AleIAfeI 780 225 220 215 210 YLFLHHRGESREYQEVITYD dTomato YLFLHHRGESREYQEVITYD c g t a c a g g a a c a g g t g g t g g c g g c c c t c g g a g c g c t c g t a c t g t t c c a c g a t g g t g t a g t g c a t g t c c t t g t c c a c c a c c g c c g g g a g c c t c g c g a g c a t g a c a a g g t g c t a c c a c a t c a

840 205 200 195 190 ENHSTIDLKTDVYYYGPLQV dTomato G C A A C A C C C T C C A C T A C A G G T C G A DsRed1-C ENHSTIDLKTDVYYYGPLQV c c t c g t t g t g g g a g g t g a t g t c c a g c t t g g t g t c c a c g t a g t a g t a g c c g g g c a g t t g c a g g a g c a a c a c c c t c c a c t a c a g g t c g a a c c a c a g g t g c a t c a t c a t c g g c c c g t c a a c g t

900 185 180 175 170 PKKAMYITKFEVLYHGGDKL dTomato PKKAMYITKFEVLYHGGDKL c g g g c t t c t t g g c c a t g t a g a t g g t c t t g a a c t c c a c c a g g t a g t g g c c g c c g t c c t t c a g c c c g a a g a a c c g g t a c a t c t a c c a g a a c t t g a g g t g g t c c a t c a c c g g c g g c a g g a a g t

960 165 160 155 150 KLAQHIEGKLVGDRPYLRET dTomato KLAQHIEGKLVGDRPYLRET g c t t c a g g g c c t g g t g g a t c t c g c c c t t c a g c a c g c c g t c g c g g g g g t a c a g g c g c t c g g c g a a g t c c c g g a c c a c c t a g a g c g g g a a g t c g t g c g g c a g c g c c c c c a t g t c c g c g a g c c

BbsI 1020 145 140 135 130 SAEWGMTKKQMVPGDPPFNT dTomato A G A A G A A G A C G T A A T G C C C C mCherry-F SAEWGMTKKQMVPGDPPFNT t g g a g g c c t c c c a g c c c a t g g t c t t c t t c t g c a t t a c g g g g c c g t c g g g g g g g a a g t t g g a c c t c c g g a g g g t c g g g t a c c a g a a g a a g a c g t a a t g c c c c g g c a g c c c c c c c t t c a a c c

SbfI 1080 125 120 115 110 GRMKVKYILTGDQLSSDQTV dTomato GRMKVKYILTGDQLSSDQTV t g c c g c g c a t c t t c a c c t t g t a g a t c a g c g t g c c g t c c t g c a g g g a g g a g t c c t g g g t c a a c g g c g c g t a g a a g t g g a a c a t c t a g t c g c a c g g c a g g a c g t c c c t c c t c a g g a c c c a g t

PshAI 1140 105 100 95 90 TVLGGDEFNMVREWKFGEPF dTomato TVLGGDEFNMVREWKFGEPF c g g t c a c c a g a c c g c c g t c c t c g a a g t t c a t c a c g c g c t c c c a c t t g a a g c c c t c g g g g a g c c a g t g g t c t g g c g g c a g g a g c t t c a a g t a g t g c g c g a g g g t g a a c t t c g g g a g c c c c t

1200 85 80 75 70 SLKKYDPIDAPHKVYAKSGY dTomato SLKKYDPIDAPHKVYAKSGY a g g a c a g c t t c t t g t a a t c g g g g a t g t c g g c g g g g t g c t t c a c g t a c g c c t t g g a g c c g t t c c t g t c g a a g a a c a t t a g c c c c t a c a g c c g c c c c a c g a a g t g c a t g c g g a a c c t c g g c a

AhdI 1260 65 60 55 50 MFQPSLIDWAFPLPGGKTVK dTomato T T G G T C A C C T mCherry-R MFQPSLIDWAFPLPGGKTVK a c a t g a a c t g g g g g g a c a g g a t g t c c c a g g c g a a g g g c a g g g g g c c g c c c t t g g t c a c c t t g t a c t t g a c c c c c c t g t c c t a c a g g g t c c g c t t c c c g t c c c c c g g c g g g a a c c a g t g g a

1320 45 40 35 30 LKATQTGEYPRGEGEGEIEF dTomato T C A G C T T G G mCherry-R LKATQTGEYPRGEGEGEIEF t c a g c t t g g c g g t c t g g g t g c c c t c g t a g g g g c g g c c c t c g c c c t c g c c c t c g a t c t c g a a g t c g a a c c g c c a g a c c c a c g g g a g c a t c c c c g c c g g g a g c g g g a g c g g g a g c t a g a g c t

FspAI 1380 25 20 15 10 EHGNMSGEMRVKFRMFEKIV dTomato EHGNMSGEMRVKFRMFEKIV a c t c g t g g c c g t t c a t g g a g c c c t c c a t g c g c a c c t t g a a g c g c a t g a a c t c t t t g a t g a t g a g c a c c g g c a a g t a c c t c g g g a g g t a c g c g t g g a a c t t c g c g t a c t t g a g a a a c t a c t

1440 5 EEGKSV (in frame with FLAG) TSGLGGGST 5 KDDDD dTomato FLAG EEGKSVTSGLGGGSTKDDDD c c t c c t c g c c c t t g c t c a c g g t g g a a c c c a g t c c g c c a c c g g a a g t t t t a t c g t c g t c a t g g a g g a g c g g g a a c g a g t g c c a c c t t g g g t c a g g c g g t g g c c t t c a a a a t a g c a g c a g t a

BpmI 1500 1 KYD FLAG minimal CMV promoter Kozak sequence C T A G A C T G C C A A G T G A T T T G C T C G A LNCX KYDM c c t t g t a g t c c a t g g t g g c g a a t t c t c c a g g c g a t c t g a c g g t t c a c t a a a c g a g c t c t g g g a a c a t c a g g t a c c a c c g c t t a a g a g g t c c g c t a g a c t g c c a a g t g a t t t g c t c g a g a c

1560 minimal CMV promoter c t t a t a t a g g c c t c c c a c c g t a c a c g c c t a c c t c g c a c c a t t c t t c a c t g t g g g g t g g a g g a a t a t a t c c g g a g g g t g g c a t g t g c g g a t g g a g c g t g g t a a g a a g t g a c a c c c c a c c t c

I-SceI 1620 g g g a c t g g t a c t a t t a c c c t g t t a t c c c t a a a g g g c g a a t t c t g c a g a t a t c c a t c a c a c c c c t g a c c a t g a t a a t g g g a c a a t a g g g a t t t c c c g c t t a a g a c g t c t a t a g g t a g t g t g

PspOMI 1680 t g g c g g c c g a t t c t t c a c t g t g g g g t g g a g g g g a c t g g t c t c g a g c a t g c a t c t a g a g g g a c c g c c g g c t a a g a a g t g a c a c c c c a c c t c c c c t g a c c a g a g c t c g t a c g t a g a t c t c c c

ApaI 1740 T7 promoter M13 fwd G G G A T A T C A C T C A G C A T A A T T7 T G A C C G G C A G C A A A A T G T M13 Forward G C A A A A T G T T G C A G C A M13/pUC Forward c c c a a t t c g c c c t a t a g t g a g t c g t a t t a c a a t t c a c t g g c c g t c g t t t t a c a a c g t c g t g g g t t a a g c g g g a t a t c a c t c a g c a t a a t g t t a a g t g a c c g g c a g c a a a a t g t t g c a g c a

1800 C T G A C C C M13/pUC Forward g a c t g g g a a a a c c c t g g c g t t a c c c a a c t t a a t c g c c t t g c a g c a c a t c c c c c t t t c g c c c t g a c c c t t t t g g g a c c g c a a t g g g t t g a a t t a g c g g a a c g t c g t g t a g g g g g a a a g c g g

PvuI 1860 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 c g c a g c c t a 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 g c g t c g g a t

SnaBI 1920 5 10 15 QFKVYTYKRESRYRLFV ccdB t a c g t a c g g c a g t t t a a g g t t t a c a c c t a t a a a a g a g a g a g c c g t t a t c g t c t g t t t g t g a t g c a t g c c g t c a a a t t c c a a a t g t g g a t a t t t t c t c t c t c g g c a a t a g c a g a c a a a c a c

1980 20 25 30 35 DVQSDIIDTPGRRMVIPLAS ccdB g a t g t a c a g a g t g a t a t t a t t g a c a c g c c g g g g c g a c g g a t g g t g a t c c c c c t g g c c a g t c t a c a t g t c t c a c t a t a a t a a c t g t g c g g c c c c g c t g c c t a c c a c t a g g g g g a c c g g t c a

2040 40 45 50 55 ARLLSDKVSRELYPVVHIGD ccdB g c a c g t c t g c t g t c a g a t a a a g t c t c c c g t g a a c t t t a c c c g g t g g t g c a t a t c g g g g a t c g t g c a g a c g a c a g t c t a t t t c a g a g g g c a c t t g a a a t g g g c c a c c a c g t a t a g c c c c t a

2100 60 65 70 75 ESWRMMTTDMASVPVSVIGE ccdB G C A T G A T G A C C A C C G A T A T G ccdB-fwd g a a a g c t g g c g c a t g a t g a c c a c c g a t a t g g c c a g t g t g c c g g t c t c c g t t a t c g g g g a a c t t t c g a c c g c g t a c t a c t g g t g g c t a t a c c g g t c a c a c g g c c a g a g g c a a t a g c c c c t t

2160 80 85 90 95 EVADLSHRENDIKNAINLMF ccdB g a a g t g g c t g a t c t c a g c c a c c g c g a a a a t g a c a t c a a a a a c g c c a t t a a c c t g a t g t t c c t t c a c c g a c t a g a g t c g g t g g c g c t t t t a c t g t a g t t t t t g c g g t a a t t g g a c t a c a a g

2220 100 WGI* ccdB t g g g g a a t a t a a a t g t c a g g c a t g a g a t t a t c a a a a a g g a t c t t c a c c t a g a t c c t t t t c a c c c c t t a t a t t t a c a g t c c g t a c t c t a a t a g t t t t t c c t a g a a g t g g a t c t a g g a a a a g

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

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

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

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

BclI*XcmI 2520 a g g a t c t g a t g g c g c a g g g g a t c a a g c t c t 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 t c c t a g a c t a c c g c g t c c c c t a g t t c g a g a 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

2580 1 5 10 15 20 MIEQDGLHAGSPAAWVERLF NeoR/KanR 1 5 10 15 20 MIEQDGLHAGSPAAWVERLF NeoR/KanR G A T A A G Neo-R MIEQDGLHAGSPAAWVERLF a t g a t t g a a c a a g a t g g a t t g c a 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 t a c t a a c t t g t t c t a c c t a a c g t 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

2640 25 30 35 40 GYDWAQQTIGCSDAAVFRLS NeoR/KanR 25 30 35 40 GYDWAQQTIGCSDAAVFRLS NeoR/KanR C C G A T A C T G A C C C G Neo-R GYDWAQQTIGCSDAAVFRLS g g c t a t g a c t g g g c a c a a c a g a c 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 c c g a t a c t g a c c c g t g t t g t c t g 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

2700 45 50 55 60 AQGRPVLFVKTDLSGALNEL NeoR/KanR 45 50 55 60 AQGRPVLFVKTDLSGALNEL NeoR/KanR AQGRPVLFVKTDLSGALNEL g c g c a g g g g c g c c c g g t t c t t t t 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 g c g t c c c c g c g g g c c a a g a a a a 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

2760 65 70 75 80 QDEAARLSWLATTGVPCAAV NeoR/KanR 65 70 75 80 QDEAARLSWLATTGVPCAAV NeoR/KanR QDEAARLSWLATTGVPCAAV c a a g a c g a g g c a g c g c g g c t a t c 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 g t t c t g c t c c g t c g c g c c g a t a 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

Tth111IPflFI 2820 85 90 95 100 LDVVTEAGRDWLLLGEVPGQ NeoR/KanR 85 90 95 100 LDVVTEAGRDWLLLGEVPGQ NeoR/KanR LDVVTEAGRDWLLLGEVPGQ c t c g a c g t t g t c a c t g a a g c g g g 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 g c t g c a a c a g t g a c t t c g c c 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

2880 105 110 115 120 DLLSSHLAPAEKVSIMADAM NeoR/KanR 105 110 115 120 DLLSSHLAPAEKVSIMADAM NeoR/KanR DLLSSHLAPAEKVSIMADAM *RVKSRGLFYGDHSICH g a t c t c c t g t c a t c t c a c c t t g c 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 t a g a g g a c a g t a g a g t g g a a c g 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

BsrDI 2940 125 130 135 140 RRLHTLDPATCPFDHQAKHR NeoR/KanR 125 130 135 140 RRLHTLDPATCPFDHQAKHR NeoR/KanR RRLHTLDPATCPFDHQAKHR PPQMRKIRSGAWEVVLRFMA c g g c g g c t g c a t a c g c t t g a t c c 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 g c c g c c g a c g t a t g c g a a c t a g g 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

3000 145 150 155 160 IERARTRMEAGLVDQDDLDE NeoR/KanR 145 150 155 160 IERARTRMEAGLVDQDDLDE NeoR/KanR IERARTRMEAGLVDQDDLDE DLSCTSPHFGTKDILIIQVF a t c g a g c g a g c a c g t a c t c g g a t 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 t a g c t c g c t c g t g c a t g a g c c t a 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

3060 165 170 175 180 EHQGLAPAELFARLKASMPD NeoR/KanR 165 170 175 180 EHQGLAPAELFARLKASMPD NeoR/KanR EHQGLAPAELFARLKASMPD LMLPERWGFQEGPELRAHGV g a g c a t c a g g g g c t c g c g c c a g c 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 c t c g t a g t c c c c g a g c g c g g t c g 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

3120 185 190 195 200 GEDLVVTHGDACLPNIMVEN NeoR/KanR 185 190 195 200 GEDLVVTHGDACLPNIMVEN NeoR/KanR GEDLVVTHGDACLPNIMVEN ALIEDHGMAIGAQRIDHHFI g g c g a g g a t c t c g t c g t g a c c c a 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 c c g c t c c t a g a g c a g c a c t g g g t 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

RsrII 3180 205 210 215 220 GRFSGFIDCGRLGVADRYQD NeoR/KanR 205 210 215 220 GRFSGFIDCGRLGVADRYQD NeoR/KanR GRFSGFIDCGRLGVADRYQD AAKRSEDVTAPQTHRVAILV g g c c g c t t t t c t g g a t t c a t c g a 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 c c g g c g a a a a g a c c t a a g t a g c 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

3240 225 230 235 240 IALATRDIAEELGGEWADRF NeoR/KanR 225 230 235 240 IALATRDIAEELGGEWADRF NeoR/KanR C G T T G G C T A C C C G T G A T A T T Neo-F IALATRDIAEELGGEWADRF YRQSGTINSFLKAAFPSVAE a t a g c g t t g g c t a c c c g t g a t a t 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 t a t c g c a a c c g a t g g g c a c t a t a 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

3300 245 250 255 260 LVLYGIAAPDSQRIAFYRLL NeoR/KanR 245 250 255 260 LVLYGIAAPDSQRIAFYRLL NeoR/KanR LVLYGIAAPDSQRIAFYRLL EHKVTDGSGIRLADGEIAKK c t c g t g c t t t a c g g t a t c g c c g c 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 g c a c g a a a t g c c a t a g c g g c g 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

3360 265 DEFF* NeoR/KanR 265 DEFF* NeoR/KanR DEFF* VLEESNNVSVIEQHPIKEKR g a c g a g t t c t t c t g a a t t a t t a a c g c t t a c a a t t t c c t g a t g c g g t a t t t t c t c c t t a c g c t g c t c a a g a a g a c t t a a t a a t t g c g a a t g t t a a a g g a c t a c g c c a t a a a a g a g g a a t g c

3420 M 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 a g g t g g c a c t t t t c g g g g a a a t g t g c g c g g a a 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 t c c a c c g t g a a a a g c c c c t t t a c a c g c g c c t t

3480 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 c a t g a g a c a a t a a c 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 g t a c t c t g t t a t t g

SfiI 3540 1 5 MAKLTS BleoR Kozak sequence c c t g a t a a a t g c t t c a a t a a t a g c a c g t g a g g a g g g c c a c c a t g g c c a a g t t g a c c a g t g g g a c t a t t t a c g a a g t t a t t a t c g t g c a c t c c t c c c g g t g g t a c c g g t t c a a c t g g t c a c

ZraIAatIIBssHIIMauBI 3600 10 15 20 25 AVPVLTARDVAGAVEFWTDR BleoR c c g t t c c g g t g c t c a c c g c g c g c g a c g t c g c c g g a g c g g t c g a g t t c t g g a c c g a c c g g c g g c a a g g c c a c g a g t g g c g c g c g c t g c a g c g g c c t c g c c a g c t c a a g a c c t g g c t g g c c g

SgrAI 3660 30 35 40 45 LGFSRDFVEDDFAGVVRDDV BleoR t c g g g t t c t c c c g g g a c t t c g t g g a g g a c g a c t t c g c c g g t g t g g t c c g g g a c g a c g t g a a g c c c a a g a g g g c c c t g a a g c a c c t c c t g c t g a a g c g g c c a c a c c a g g c c c t g c t g c a c t

3720 50 55 60 65 TLFISAVQDQVVPDNTLAWV BleoR c c c t g t t c a t c a g c g c g g t c c a g g a c c a g g t g g t g c c g g a c a a c a c c c t g g c c t g g g t g t g g g a c a a g t a g t c g c g c c a g g t c c t g g t c c a c c a c g g c c t g t t g t g g g a c c g g a c c c a c a

3780 70 75 80 85 WVRGLDELYAEWSEVVSTNF BleoR g g g t g c g c g g c c t g g a c g a g c t g t a c g c c g a g t g g t c g g a g g t c g t g t c c a c g a a c t t c c c c c a c g c g c c g g a c c t g c t c g a c a t g c g g c t c a c c a g c c t c c a g c a c a g g t g c t t g a a g g

FseI 3840 90 95 100 105 RDASGPAMTEIGEQPWGREF BleoR g g g a c g c c t c c g g g c c g g c c a t g a c c g a g a t c g g c g a g c a g c c g t g g g g g c g g g a g t t c g c c c t g c g g a g g c c c g g c c g g t a c t g g c t c t a g c c g c t c g t c g g c a c c c c c g c c c t c a a g c

DraIII 3900 110 115 120 125 ALRDPAGNCVHFVAEEQD* BleoR c c c t g c g c g a c c c g g c c g g c a a c t g c g t g c a c t t c g t g g c c g a g g a g c a g g a c t g a c a c g g g g a c g c g c t g g g c c g g c c g t t g a c g c a c g t g a a g c a c c g g c t c c t c g t c c t g a c t g t g c

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

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

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

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

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

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

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

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

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

4500 ori 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 a g g a g 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 g t c c t c

4560 ori G G G A A A C G C C T G G T A T C T T T pBR322ori-F 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 g t t 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 c c a a a g

4620 ori 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 t a t g g a 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 a t a c c t

PciI 4680 ori 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 g c t t t t g c t g g c c t t t t g c t c a c a 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 c g a a a a c g a c c g g a a a a c g a g t g t

4740 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 a g t g a g 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 t c a c t c

4800 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 a a g c g g 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 t t c g c c

3ʹ 5ʹ 4803 a a g t t c

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.