Addgene pPN10-gDM1d Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pPN10-gDM1d Sequencing Result


Map View

EcoRV (5277) NotI (5258) AvrII (4933) BmtI (4919) NheI (4915) SbfI (4905) AgeI (4882) Puro-R (4807 .. 4826) BstEII (4686) SacII (4613) Puro-F (4310 .. 4330) BpmI (4329) BsmI (4011) MfeI (4006) HpaI (3997) PsiI (3977) SV40pA-R (3941 .. 3960) ApaI (3896) PspOMI (3892) T7 promoter T7 (3866 .. 3885) M13 Forward (3842 .. 3859) M13/pUC Forward (3828 .. 3850) PvuI (3743) SnaBI (3711) ccdB-fwd (3505 .. 3524) XcmI (3110) BclI * (3080) Neo-R (2981 .. 3000) BsrDI (2694) XmnI (10) hU6-F (51 .. 71) LKO.1 5' (222 .. 241) NdeI (229) attB2 SpeI (468) Eco53kI (482) SacI (484) HindIII (492) SP6 (517 .. 534) M13 rev M13 Reverse (552 .. 568) lac operator M13/pUC Reverse (565 .. 587) CAP binding site L4440 (783 .. 800) PciI (893) pBR322ori-F (1034 .. 1053) FseI (1781) SgrAI (1935) MauBI (2013) Neo-F (2371 .. 2390) pPN10-gDM1d 5315 bp

Sequence View

XmnI 5ʹ 3ʹ 60 U6 promoter G A G G G C C T A T hU6-F t a a a g g a a c c a a t t c a g t c g a c t g g a t c c g g t a c c a a g g t c g g g c a g g a a g a g g g c c t a t a t t t c c t t g g t t a a g t c a g c t g a c c t a g g c c a t g g t t c c a g c c c g t c c t t c t c c c g g a t a

120 U6 promoter T T C C C A T G A T T hU6-F t t c c c a t g a t t c c t t c a t a t t t g c a t a t a c g a t a c a a g g c t g t t a g a g a g a t a a t t a g a a a a g g g t a c t a a g g a a g t a t a a a c g t a t a t g c t a t g t t c c g a c a a t c t c t c t a t t a a t c t t

180 U6 promoter t t a a t t t g a c t g t a a a c a c a a a g a t a t t a g t a c a a a a t a c g t g a c g t a g a a a g t a a t a a t a a t t a a a c t g a c a t t t g t g t t t c t a t a a t c a t g t t t t a t g c a c t g c a t c t t t c a t t a t t a

NdeI 240 U6 promoter G A C T A T C A T A T G C T T A C C G LKO.1 5' t t c t t g g g t a g t t t g c a g t t t t a a a a t t a t g t t t t a a a a t g g a c t a t c a t a t g c t t a c c g a a g a a c c c a t c a a a c g t c a a a a t t t t a a t a c a a a a t t t t a c c t g a t a g t a t a c g a a t g g c

300 U6 promoter T LKO.1 5' t a a c t t g a a a g t a t t t c g a t t t c t t g g c t t t a t a t a t c t t g t g g a a a g g a c g a a a c a c c g a t t g a a c t t t c a t a a a g c t a a a g a a c c g a a a t a t a t a g a a c a c c t t t c c t g c t t t g t g g c

360 gRNA scaffold c a c c t a t c g t t g g t t c g c a g t t t t a g a g c t a g a a a t a g c a a g t t a a a a t a a g g c t a g t c c g t g g a t a g c a a c c a a g c g t c a a a a t c t c g a t c t t t a t c g t t c a a t t t t a t t c c g a t c a g g

420 gRNA scaffold attB2 g t t a t c a a c t t g a a a a a g t g g c a c c g a g t c g g t g c t t t t t t t c t a g a c c c a g c t t t c t t g c a a t a g t t g a a c t t t t t c a c c g t g g c t c a g c c a c g a a a a a a a g a t c t g g g t c g a a a g a a c

SpeI 480 attB2 t a c a a a g t t g g c a t t a a a g g g c g a a t t c c a g c a c a c t g g c g g c c g t t a c t a g t g g a t c c g a t g t t t c a a c c g t a a t t t c c c g c t t a a g g t c g t g t g a c c g c c g g c a a t g a t c a c c t a g g c

HindIIIEco53kISacI 540 SP6 promoter G A T A T C A C A G T G G A T T T A SP6 a g c t c g g t a c c a a g c t t g a t g c a t a g c t t g a g t a t t c t a t a g t g t c a c c t a a a t a g c t t g t c g a g c c a t g g t t c g a a c t a c g t a t c g a a c t c a t a a g a t a t c a c a g t g g a t t t a t c g a a c

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

660 -10 -35 lac promoter CAP binding site a a c a t a c g a g c c g g a a g c a t a a a g t g t a a a g c c t g g g g t g c c t a a t g a g t g a g c t a a c t c t t g t a t g c t c g g c c t t c g t a t t t c a c a t t t c g g a c c c c a c g g a t t a c t c a c t c g a t t g a g

720 CAP binding site a c a t t a a t t g c g t t g c g c t c a c t g c c c g c t t t c c a g t c g g g a a a c c t g t c g t g c c a g c t g t g t a a t t a a c g c a a c g c g a g t g a c g g g c g a a a g g t c a g c c c t t t g g a c a g c a c g g t c g a c

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

840 G A G C G A G T G A C T G A G C G A L4440 t c c t c g c t c a c t g a c t c g c t g c g c t c g g t c g t t c g g c t g c g g c g a g c g g t a t c a g c t c a c a g g a g c g a g t g a c t g a g c g a c g c g a g c c a g c a a g c c g a c g c c g c t c g c c a t a g t c g a g t g

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

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

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

1080 ori T T T C T A T G G T C C G C A A A G G G pBR322ori-F c c g a c a g g a c t a t a a a g a t a c c a g g c g t t t c c c c c t g g a a g c t c c c t c g t g c g c t c t c c t g g c t g t c c t g a t a t t t c t a t g g t c c g c a a a g g g g g a c c t t c g a g g g a g c a c g c g a g a g g a

1140 ori g t t c c g a c c c t g c c g c t t a c c g g a t a c c t g t c c g c c t t t c t c c c t t c g g g a a g c g t g g c g c a a g g c t g g g a c g g c g a a t g g c c t a t g g a c a g g c g g a a a g a g g g a a g c c c t t c g c a c c g c

1200 ori c t t t c t c a t a g c t c a c g c t g t a g g t a t c t c a g t t c g g t g t a g g t c g t t c g c t c c a a g c t g g a a a g a g t a t c g a g t g c g a c a t c c a t a g a g t c a a g c c a c a t c c a g c a a g c g a g g t t c g a c

1260 ori g g c t g t g t g c a c g a a c c c c c c g t t c a g c c c g a c c g c t g c g c c t t a t c c g g t a a c t a t c g t c c g a c a c a c g t g c t t g g g g g g c a a g t c g g g c t g g c g a c g c g g a a t a g g c c a t t g a t a g c a

1320 ori c t t g a g t c c a a c c c g g t a a g a c a c g a c t t a t c g c c a c t g g c a g c a g c c a c t g g t a a c a g g g a a c t c a g g t t g g g c c a t t c t g t g c t g a a t a g c g g t g a c c g t c g t c g g t g a c c a t t g t c c

1380 ori a t t a g c a g a g c g a g g t a t g t a g g c g g t g c t a c a g a g t t c t t g a a g t g g t g g c c t a a c t a c t a a t c g t c t c g c t c c a t a c a t c c g c c a c g a t g t c t c a a g a a c t t c a c c a c c g g a t t g a t g

1440 ori g g c t a c a c t a g a a g a a c a g t a t t t g g t a t c t g c g c t c t g c t g a a g c c a g t t a c c t t c g g a c c g a t g t g a t c t t c t t g t c a t a a a c c a t a g a c g c g a g a c g a c t t c g g t c a a t g g a a g c c t

1500 ori a a a a g a g t t g g t a g c t c t t g a t c c g g c a a a c a a a c c a c c g c t g g t a g c g g t g g t t t t t t t t t t t c t c a a c c a t c g a g a a c t a g g c c g t t t g t t t g g t g g c g a c c a t c g c c a c c a a a a a a a

1560 ori g t t t g c a a g c a g c a g a t t a c g c g c a g a a a a a a a g g a t c t c a a g a a g a t c c t t t g a t c t t t c a a a c g t t c g t c g t c t a a t g c g c g t c t t t t t t t c c t a g a g t t c t t c t a g g a a a c t a g a a a

1620 t c t a c g g g g t c t g a c g c t c a g t g g a a c g a a a a c t c a c g t t a a g g g a t t t t g g t c a t g a g a a g a t g c c c c a g a c t g c g a g t c a c c t t g c t t t t g a g t g c a a t t c c c t a a a a c c a g t a c t c t

1680 BleoR *ILFSTKART 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 a a a t t a a a a a t g a a g t t t t a g c a c g t g 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 t t t a a t t t t t a c t t c a a a a t c g t g c a c a

1740 125 120 115 110 *DQEEAVFHVCNGAPDRLAF BleoR LGAGRGRLARLQRGPRAPRV c a g t c c t g c t c c t c g g c c a c g a a g t g c a c g c a g t t g c c g g c c g g g t c g c g c a g g g c g a a c g t c a g g a c g a g g a g c c g g t g c t t c a c g t g c g t c a a c g g c c g g c c c a g c g c g t c c c g c t t g

FseI 1800 105 100 95 90 ERGWPQEGIETMAPGSADRF BleoR GAGVAARRDRDHGARLRGPL t c c c g c c c c c a c g g c t g c t c g c c g a t c t c g g t c a t g g c c g g c c c g g a g g c g t c c c g g a a g a g g g c g g g g g t g c c g a c g a g c g g c t a g a g c c a g t a c c g g c c g g g c c t c c g c a g g g c c t t c

1860 85 80 75 70 NTSVVESWEAYLEDLGRVWV BleoR EHVRGGVVRRVARGPRAGVG t t c g t g g a c a c g a c c t c c g a c c a c t c g g c g t a c a g c t c g t c c a g g c c g c g c a c c c a c a c c a a g c a c c t g t g c t g g a g g c t g g t g a g c c g c a t g t c g a g c a g g t c c g g c g c g t g g g t g t g g

1920 65 60 55 50 WALTNDPVVQDQVASIFLTV BleoR LGPHQGAGGPGPGRQHVPDR c a g g c c a g g g t g t t g t c c g g c a c c a c c t g g t c c t g g a c c g c g c t g a t g a a c a g g g t c a c g g t c c g g t c c c a c a a c a g g c c g t g g t g g a c c a g g a c c t g g c g c g a c t a c t t g t c c c a g t g c

SgrAI 1980 45 40 35 30 DDRVVGAFDDEVFDRSFGLR BleoR RGPGCRRLRGGRLGPLVRAP t c g t c c c g g a c c a c a c c g g c g a a g t c g t c c t c c a c g a a g t c c c g g g a g a a c c c g a g c c g g a g c a g g g c c t g g t g t g g c c g c t t c a g c a g g a g g t g c t t c a g g g c c c t c t t g g g c t c g g c c

MauBI 2040 25 20 15 10 DTWFEVAGAVDRATLVPVAS BleoR RDLVRGSRRRRARHAGSRCQ t c g g t c c a g a a c t c g a c c g c t c c g g c g a c g t c g c g c g c g g t g a g c a c c g g a a c g g c a c t g a g c c a g g t c t t g a g c t g g c g a g g c c g c t g c a g c g c g c g c c a c t c g t g g c c t t g c c g t g a c

2100 5 1 TLKAM BleoR Kozak sequence DVQGHHGEERAIISANILTI g t c a a c t t g g c c a t g g t g g c c c t c c t c a c g t g c t a t t a t t g a a g c a t t t a t c a g g g t t a t c a g t t g a a c c g g t a c c a c c g g g a g g a g t g c a c g a t a a t a a c t t c g t a a a t a g t c c c a a t a

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

2220 MRK ACKGSFHWRIRHSIGCLHTL c g c a c a t t t c c c c g a a a a g t g c c a c c t g a t g c g g t g t g a a a t a c c g c a c a g a t g c g t a a g g c g t g t a a a g g g g c t t t t c a c g g t g g a c t a c g c c a c a c t t t a t g g c g t g t c t a c g c a t t c

2280 265 260 *FFEDLL NeoR/KanR 265 260 *FFEDLL NeoR/KanR EKIPHQEIVSVNNSEELVKK LFYRM*FFEDLL g a g a a a a t a c c g c a t c a g g a a a t t g t a a g c g t t a a t a a t t c a g a a g a a c t c g t c a a g a a g c t c t t t t a t g g c g t a g t c c t t t a a c a t t c g c a a t t a t t a a g t c t t c t t g a g c a g t t c t t c

2340 255 250 245 240 RYFAIRQSDPAAIGYLVLFR NeoR/KanR 255 250 245 240 RYFAIRQSDPAAIGYLVLFR NeoR/KanR AIEGDALRIGSGDTVKHEEA RYFAIRQSDPAAIGYLVLFR g c g a t a g a a g g c g a t g c g c t g c g a a t c g g g a g c g g c g a t a c c g t a a a g c a c g a g g a a g c g c g c t a t c t t c c g c t a c g c g a c g c t t a g c c c t c g c c g c t a t g g c a t t t c g t g c t c c t t c g c

2400 235 230 225 220 DAWEGGLEEAIDRTALAIDQ NeoR/KanR 235 230 225 220 DAWEGGLEEAIDRTALAIDQ NeoR/KanR T T A T A G T G C C C A T C G G T T G C Neo-F VSPFAAKLFSNITGSQRYVL DAWEGGLEEAIDRTALAIDQ g t c a g c c c a t t c g c c g c c a a g c t c t t c a g c a a t a t c a c g g g t a g c c a a c g c t a t g t c c t g c a g t c g g g t a a g c g g c g g t t c g a g a a g t c g t t a t a g t g c c c a t c g g t t g c g a t a c a g g a c

2460 215 210 205 200 YRDAVGLRGCDIFGSFRGNE NeoR/KanR 215 210 205 200 YRDAVGLRGCDIFGSFRGNE NeoR/KanR IAVRHTQPATVDESRKAAIF YRDAVGLRGCDIFGSFRGNE a t a g c g g t c c g c c a c a c c c a g c c g g c c a c a g t c g a t g a a t c c a g a a a a g c g g c c a t t t t c t a t c g c c a g g c g g t g t g g g t c g g c c g g t g t c a g c t a c t t a g g t c t t t t c g c c g g t a a a a g

2520 195 190 185 180 VMINPLCADGHTVVLDEGDP NeoR/KanR 195 190 185 180 VMINPLCADGHTVVLDEGDP NeoR/KanR HHDIRQAGIAMGHDEILAVG VMINPLCADGHTVVLDEGDP c a c c a t g a t a t t c g g c a a g c a g g c a t c g c c a t g g g t c a c g a c g a g a t c c t c g c c g t c g g g g t g g t a c t a t a a g c c g t t c g t c c g t a g c g g t a c c c a g t g c t g c t c t a g g a g c g g c a g c c c

2580 175 170 165 160 MSAKLRAFLEAPALGQHEED NeoR/KanR 175 170 165 160 MSAKLRAFLEAPALGQHEED NeoR/KanR HARLEPGEQFGWREPLMLFV MSAKLRAFLEAPALGQHEED c a t g c t c g c c t t g a g c c t g g c g a a c a g t t c g g c t g g c g c g a g c c c c t g a t g c t c t t c g t c g t a c g a g c g g a a c t c g g a c c g c t t g t c a a g c c g a c c g c g c t c g g g g a c t a c g a g a a g c a g

2640 155 150 145 140 LDDQDVLGAEMRTRAREIRH NeoR/KanR 155 150 145 140 LDDQDVLGAEMRTRAREIRH NeoR/KanR QIILIDKTGFHPSTCSLDAM LDDQDVLGAEMRTRAREIRH c a g a t c a t c c t g a t c g a c a a g a c c g g c t t c c a t c c g a g t a c g t g c t c g c t c g a t g c g a t g g t c t a g t a g g a c t a g c t g t t c t g g c c g a a g g t a g g c t c a t g c a c g a g c g a g c t a c g c t a c

BsrDI 2700 135 130 125 120 KAQHDFPCTAPDLTHLRRMA NeoR/KanR 135 130 125 120 KAQHDFPCTAPDLTHLRRMA NeoR/KanR FRLVVEWAGSRIKRMQPPHC KAQHDFPCTAPDLTHLRRMA t t t c g c t t g g t g g t c g a a t g g g c a g g t a g c c g g a t c a a g c g t a t g c a g c c g c c g c a t t g c a a a g c g a a c c a c c a g c t t a c c c g t c c a t c g g c c t a g t t c g c a t a c g t c g g c g g c g t a a c g

2760 115 110 105 100 DAMISVKEAPALHSSLLDQG NeoR/KanR 115 110 105 100 DAMISVKEAPALHSSLLDQG NeoR/KanR ISHDGYFLGRSKVR* DAMISVKEAPALHSSLLDQG a t c a g c c a t g a t g g a t a c t t t c t c g g c a g g a g c a a g g t g a g a t g a c a g g a g a t c c t g c c c t a g t c g g t a c t a c c t a t g a a a g a g c c g t c c t c g t t c c a c t c t a c t g t c c t c t a g g a c g g g

2820 95 90 85 80 PVEGLLLWDRGAETVVDLVA NeoR/KanR 95 90 85 80 PVEGLLLWDRGAETVVDLVA NeoR/KanR PVEGLLLWDRGAETVVDLVA c g g c a c t t c g c c c a a t a g c a g c c a g t c c c t t c c c g c t t c a g t g a c a a c g t c g a g c a c a g c g c c g t g a a g c g g g t t a t c g t c g g t c a g g g a a g g g c g a a g t c a c t g t t g c a g c t c g t g t c g

2880 75 70 65 60 ACPVGTTALWSLRAAEDQLE NeoR/KanR 75 70 65 60 ACPVGTTALWSLRAAEDQLE NeoR/KanR ACPVGTTALWSLRAAEDQLE t g c g c a a g g a a c g c c c g t c g t g g c c a g c c a c g a t a g c c g c g c t g c c t c g t c t t g c a g t t c a c g c g t t c c t t g c g g g c a g c a c c g g t c g g t g c t a t c g g c g c g a c g g a g c a g a a c g t c a a g

2940 55 50 45 40 NLAGSLDTKVFLVPRGQASL NeoR/KanR 55 50 45 40 NLAGSLDTKVFLVPRGQASL NeoR/KanR NLAGSLDTKVFLVPRGQASL a t t c a g g g c a c c g g a c a g g t c g g t c t t g a c a a a a a g a a c c g g g c g c c c c t g c g c t g a c a g t a a g t c c c g t g g c c t g t c c a g c c a g a a c t g t t t t t c t t g g c c c g c g g g g a c g c g a c t g t c

3000 35 30 25 20 RFVAADSCGITQQAWDYGFL NeoR/KanR 35 30 25 20 RFVAADSCGITQQAWDYGFL NeoR/KanR G C C C A G T C A T A G C C G A A T A G Neo-R RFVAADSCGITQQAWDYGFL c c g g a a c a c g g c g g c a t c a g a g c a g c c g a t t g t c t g t t g t g c c c a g t c a t a g c c g a a t a g g g c c t t g t g c c g c c g t a g t c t c g t c g g c t a a c a g a c a a c a c g g g t c a g t a t c g g c t t a t c

3060 15 10 5 1 REVWAAPSGAHLGDQEIM NeoR/KanR 15 10 5 1 REVWAAPSGAHLGDQEIM NeoR/KanR REVWAAPSGAHLGDQEIM c c t c t c c a c c c a a g c g g c c g g a g a a c c t g c g t g c a a t c c a t c t t g t t c a a t c a t g c g a a a g g a g a g g t g g g t t c g c c g g c c t c t t g g a c g c a c g t t a g g t a g a a c a a g t t a g t a c g c t t t

XcmIBclI* 3120 c g a t c c t c a t c c t g t c t c t t g a t c a g a g c t t g a t c c c c t g c g c c a t c a g a t c c t t g g c g g g c t a g g a g t a g g a c a g a g a a c t a g t c t c g a a c t a g g g g a c g c g g t a g t c t a g g a a c c g c c

3180 c a a g a a a g c c a t c c a g t t t a c t t t g c a g g g c t t c c c a a c c t t a c c a g a g g g c g c c c c a g c g t t c t t t c g g t a g g t c a a a t g a a a c g t c c c g a a g g g t t g g a a t g g t c t c c c g c g g g g t c g

3240 t g g c a a t t c c g g t t c g c t t g c t g t c c a t a a a a c c g c c c a g t c t a g c t a t c g c c a t g t a a g a c c g t t a a g g c c a a g c g a a c g a c a g g t a t t t t g g c g g g t c a g a t c g a t a g c g g t a c a t t c

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

3360 g t a g c t g a c a t t c a t c c g g g g t c a g c a c c g t t t c t g c g g a c t g g c t t t c t a c g t g a a a a g c a t c g a c t g t a a g t a g g c c c c a g t c g t g g c a a a g a c g c c t g a c c g a a a g a t g c a c t t t t c

3420 100 *IGWFM ccdB *IGWFM 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 c c t g a c a t t t a t a t t c c c c a g a a c a t 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 g g a c t g t a a a t a t a a g g g g t c t t g t a

3480 95 90 85 80 LNIANKIDNERHSLDAVEEG ccdB LNIANKIDNERHSLDAVEEG c a g g t t a a t g g c g t t t t t g a t g t c a t t t t c g c g g t g g c t g a g a t c a g c c a c t t c t t c c c c g t c c a a t t a c c g c a a a a a c t a c a g t a a a a g c g c c a c c g a c t c t a g t c g g t g a a g a a g g g g

3540 75 70 65 60 IVSVPVSAMDTTMMRWSEDG ccdB G T A T A G C C A C C A G T A G T A C G ccdB-fwd IVSVPVSAMDTTMMRWSEDG g a t a a c g g a g a c c g g c a c a c t g g c c a t a t c g g t g g t c a t c a t g c g c c a g c t t t c a t c c c c c t a t t g c c t c t g g c c g t g t g a c c g g t a t a g c c a c c a g t a g t a c g c g g t c g a a a g t a g g g g

3600 55 50 45 40 IHVVPYLERSVKDSLLRASA ccdB IHVVPYLERSVKDSLLRASA g a t a t g c a c c a c c g g g t a a a g t t c a c g g g a g a c t t t a t c t g a c a g c a g a c g t g c a c t g g c c t a t a c g t g g t g g c c c a t t t c a a g t g c c c t c t g a a a t a g a c t g t c g t c t g c a c g t g a c c g

3660 35 30 25 20 LPIVMRRGPTDIIDSQVDVF ccdB LPIVMRRGPTDIIDSQVDVF c a g g g g g a t c a c c a t c c g t c g c c c c g g c g t g t c a a t a a t a t c a c t c t g t a c a t c c a c a a a g t c c c c c t a g t g g t a g g c a g c g g g g c c g c a c a g t t a t t a t a g t g a g a c a t g t a g g t g t t t

SnaBI 3720 15 10 5 LRYRSERKYTYVKFQ ccdB LRYRSERKYTYVKFQRVYLS c a g a c g a t a a c g g c t c t c t c t t t t a t a g g t g t a a a c c t t a a a c t g c c g t a c g t a t a g g c t g t c t g c t a t t g c c g a g a g a g a a a a t a t c c a c a t t t g g a a t t t g a c g g c a t g c a t a t c c g a

PvuI 3780 RLQQSPRDTRAEESNRWSAF g c g c a a c t g t t g g g a a g g g c g a t c g g t g c g g g c c t c t t c g c t a t t a c g c c a g c t g g c g a a c g c g t t g a c a a c c c t t c c c g c t a g c c a c g c c c g g a g a a g c g a t a a t g c g g t c g a c c g c t t

3840 C C C A G T C A C G A C G M13/pUC Forward PPHAALRNLQTVGPNEWDRR a g g g g g a t g t g c t g c a a g g c g a t t a a g t t g g g t a a c g c c a g g g t t t t c c c a g t c a c g a c g t c c c c c t a c a c g a c g t t c c g c t a a t t c a a c c c a t t g c g g t c c c a a a a g g g t c a g t g c t g c

PspOMIApaI 3900 M13 fwd T7 promoter T T G T A A A A C G M13/pUC Forward T G T A A A A C G A C G G C C A G T M13 Forward T A A T A C G A C T C A C T A T A G G G T7 QLVVALSNYYSESYPSNPGR t t g t a a a a c g a c g g c c a g t g a a t t g t a a t a c g a c t c a c t a t a g g g c g a a t t g g g c c c t c t a a c a t t t t g c t g c c g g t c a c t t a a c a t t a t g c t g a g t g a t a t c c c g c t t a a c c c g g g a g a

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

BsmIMfeIHpaIPsiI 4020 SV40 poly(A) signal KNTVMILQLLCTLLLLQM t t t a t t t g t a a c c a t t 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 a a a t a a a c a t t g g t a a 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

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

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

4200 MGSCAPFG c g g c g g g g c c g c c c c g g g t g g c t t c g g t c g g a g c c a t g g g g t c g t g c g c t c c t t t c g g t c g c c g c c c c g g c g g g g c c c a c c g a a g c c a g c c t c g g t a c c c c a g c a c g c g a g g a a a g c c a g

4260 200 195 190 *AGPKRTMCWT PuroR RALRVVGRASGTGLAGHAPG *AGPKRTMCWT g g g c g c t g c g g g t c g t g g g g c g g g c g t c a g g c a c c g g g c t t g c g g g t c a t g c a c c a g g t g c c c g c g a c g c c c a g c a c c c c g c c c g c a g t c c g t g g c c c g a a c g c c c a g t a c g t g g t c c a c

4320 185 180 175 170 RPGEPVEVDATVTFGLREYF PuroR C G A G C A T C T T C Puro-F ARSFGHLDVGGDGEAEPLVE RPGEPVEVDATVTFGLREYF c g c g g t c c t t c g g g c a c c t c g a c g t c g g c g g t g a c g g t g a a g c c g a g c c g c t c g t a g a a g g c g c c a g g a a g c c c g t g g a g c t g c a g c c g c c a c t g c c a c t t c g g c t c g g c g a g c a t c t t c

BpmI 4380 165 160 155 150 PLNRPASTELFAPVGAREAA PuroR C C C T C C A A C G Puro-F GEVAGRGGLQEGGHPGALGR PLNRPASTELFAPVGAREAA g g g a g g t t g c g g g g c g c g g a g g t c t c c a g g a a g g c g g g c a c c c c g g c g c g c t c g g c c g c c c c c t c c a a c g c c c c g c g c c t c c a g a g g t c c t t c c g c c c g t g g g g c c g c g c g a g c c g g c g g

4440 145 140 135 130 EVGPLVVASGLGKGQHDPSV PuroR LHSGEHDGAAQTLALVVGRD EVGPLVVASGLGKGQHDPSV t c c a c t c c g g g g a g c a c g a c g g c g c t g c c c a g a c c c t t g c c c t g g t g g t c g g g c g a g a c g a g g t g a g g c c c c t c g t g c t g c c g c g a c g g g t c t g g g a a c g g g a c c a c c a g c c c g c t c t g c

4500 125 120 115 110 GVTALFWAPEKPRHPALLGE PuroR ADGGQEPRGLLGPVRRQEAF GVTALFWAPEKPRHPALLGE c c g a c g g t g g c c a g g a a c c a c g c g g g c t c c t t g g g c c g g t g c g g c g c c a g g a g g c c t t c c g g c t g c c a c c g g t c c t t g g t g c g c c c g a g g a a c c c g g c c a c g c c g c g g t c c t c c g g a a g g

4560 105 100 95 90 MQQQAALRSGSLEAMRPGIE PuroR HLLLRGQPGTAQLGHARADL MQQQAALRSGSLEAMRPGIE a t c t g t t g c t g c g c g g c c a g c c g g g a a c c g c t c a a c t c g g c c a t g c g c g g g c c g a t c t c g t a g a c a a c g a c g c g c c g g t c g g c c c t t g g c g a g t t g a g c c g g t a c g c g c c c g g c t a g a g c

SacII 4620 85 80 75 70 AFVAGAEVSEPTTWVAVAAG PuroR GEHRPRFDALRRGPDRHRGA AFVAGAEVSEPTTWVAVAAG g c g a a c a c c g c c c c c g c t t c g a c g c t c t c c g g c g t g g t c c a g a c c g c c a c c g c g g c g c c g c g c t t g t g g c g g g g g c g a a g c t g c g a g a g g c c g c a c c a g g t c t g g c g g t g g c g c c g c g g c

4680 65 60 55 50 DDAVWVKGIDLGVRTLFLEQ PuroR VVRDPHLADVEPDAREEEFL DDAVWVKGIDLGVRTLFLEQ t c g t c c g c g a c c c a c a c c t t g c c g a t g t c g a g c c c g a c g c g c g t g a g g a a g a g t t c t t g c a g c a g g c g c t g g g t g t g g a a c g g c t a c a g c t c g g g c t g c g c g c a c t c c t t c t c a a g a a c g

BstEII 4740 45 40 35 30 LETVREIHRDPDVTHRTAPY PuroR QLGDPLDVAVRVDGVARGGV LETVREIHRDPDVTHRTAPY a g c t c g g t g a c c c g c t c g a t g t g g c g g t c c g g g t c g a c g g t g t g g c g c g t g g c g g g g t a g t c g a g c c a c t g g g c g a g c t a c a c c g c c a g g c c c a g c t g c c a c a c c g c g c a c c g c c c c a t c

4800 25 20 15 10 DAFAAALTRVARPVDDRTAL PuroR VGERGGEGAYGPGDVVAGGE DAFAAALTRVARPVDDRTAL t c g g c g a a c g c g g c g g c g a g g g t g c g t a c g g c c c g g g g g a c g t c g t c g c g g g t g g c g a g g a g c c g c t t g c g c c g c c g c t c c c a c g c a t g c c g g g c c c c c t g c a g c a g c g c c c a c c g c t c c

4860 5 1 RVTPKYETM PuroR G T G G G C T T G T A C T C G G T C A T Puro-R AHRGLVLGHGRSSPCEGSGA RVTPKYETM c g c a c c g t g g g c t t g t a c t c g g t c a t g g a a g g t c g t c t c c t t g t g a g g g g t c a g g g g c g t g c g t g g c a c c c g a a c a t g a g c c a g t a c c t t c c a g c a g a g g a a c a c t c c c c a g t c c c c g c a

BmtINheISbfIAgeI 4920 WVRGWWRHRSWRPTCRHAS* g g g t c a g g g g a t g g t g g c g g c a c c g g t c g t g g c g g c c g a c c t g c a g g c a t g c a a g c t a g c c c c a g t c c c c t a c c a c c g c c g t g g c c a g c a c c g c c g g c t g g a c g t c c g t a c g t t c g a t c g

AvrII 4980 SV40 promoter SV40 ori t t t t t g c a a a a g c c t a g g c c t c c a a a a a a g c c t c c t c a c t a c t t c t g g a a t a g c t c a g a g a a a a a c g t t t t c g g a t c c g g a g g t t t t t t c g g a g g a g t g a t g a a g a c c t t a t c g a g t c t c

5040 SV40 promoter SV40 ori g c c g a g g c g g c c t c g g c c t c t g c a t a a a t a a a a a a a a t t a g t c a g c c a t g g g g c g g a g a a c g g c t c c g c c g g a g c c g g a g a c g t a t t t a t t t t t t t t a a t c a g t c g g t a c c c c g c c t c t t

5100 SV40 promoter SV40 ori t g g g c g g a a c t g g g c g g a g t t a g g g g c g g g a t g g g c g g a g t t a g g g g c g g g a c t a t g g t t a c c c g c c t t g a c c c g c c t c a a t c c c c g c c c t a c c c g c c t c a a t c c c c g c c c t g a t a c c a a

5160 SV40 promoter g c t g a c t a a t t g a g a t g c a t g c t t t g c a t a c t t c t g c c t g c t g g g g a g c c t g g g g a c t t t c g a c t g a t t a a c t c t a c g t a c g a a a c g t a t g a a g a c g g a c g a c c c c t c g g a c c c c t g a a a

5220 SV40 promoter c c a c a c c t g g t t g c t g a c t a a t t g a g a t g c a t g c t t t g c a t a c t t c t g c c t g c t g g g g a g g g t g t g g a c c a a c g a c t g a t t a a c t c t a c g t a c g a a a c g t a t g a a g a c g g a c g a c c c c t c

EcoRVNotI 5280 SV40 promoter c c t g g g g a c t t t c c a c a c c c t a a c t g a c a c a c t c g a g c g g c c g c c a g t g t g a t g g a t a t c g g a c c c c t g a a a g g t g t g g g a t t g a c t g t g t g a g c t c g c c g g c g g t c a c a c t a c c t a t a g

3ʹ 5ʹ 5315 t g c a g a a t t c g c c c t t t g t a c a a a a a a g c a g g c t t a c g t c t t a a g c g g g a a a c a t g t t t t t t c g t c c g a a

Restriction Enzymes

Instructions: By default, all cutters are shown. Filter on number of cut sites or search by enzyme name.

Filter

Features

Primers

BLAST

BLAST (Basic Local Alignment Search Tool) finds regions of similarity between biological sequences. Click on the buttons below to submit a BLAST search to NCBI. The results will appear in a new window. See your recent BLAST results on NCBI's website.

  • Nucleotide-Nucleotide BLAST (BLASTN)

  • Translated Nucleotide-Protein BLAST (BLASTX)

  • Sequence alignment using BLAST (BLAST2)

Sequence Analyzer Guide

Map

Displays a graphical map based on nucleotide sequence data labeled with restriction enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. Hovering over data labels will display additional information (e.g. cut site)

To select a portion of sequence, click one location on the plasmid and then a second location to display the sequence between the two locations.

Sequence

Displays both strands of base paired nucleotide sequences with annotated enzymes, plasmid features, ORFs (theoretical open reading frames) and primers. Hovering over data labels will display additional information (e.g. cut site).

To select a portion of sequence, click one location on the sequence and then a second location to display the sequence between the two locations.

Enzymes

List of restriction enzymes that can cut a given nucleotide sequence. Table lists enzyme name and the sequence location of the cut.

Features

List of common features detected in a given nucleotide sequence. Table lists feature name, location, size, color used to indicate its position on the map, and direction (if relevant).

Primers

List of commonly used primers detected in a given nucleotide sequence. Table lists primer name, sequence, length, binding site location, and direction.

BLAST

Use Basic Local Alignment Search Tool (BLAST) via the NCBI website to determine similarity between a given sequence and nucleotide (BLASTN) or protein (BLASTX) sequence databases. Additionally, align a custom nucleotide sequence against a given sequence using BLAST2.

File Downloads

GenBank

File contains the nucleotide sequence and annotated features in GenBank flat file format. Open the file with a text editor or plasmid mapping software to view the sequence.

SnapGene

File contains the nucleotide sequence and enhanced annotations from SnapGene Server. Open the file with SnapGene software or the free Viewer to view the plasmid map, sequence, and perform additional sequence analysis.