Addgene pHBS934 TDP43 RRM-GFP M-V Sequencing Result - Sequence Analyzer Skip to main content
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Sequence Analyzer: pHBS934 TDP43 RRM-GFP M-V Sequencing Result


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HindIII (20) NdeI (5235) MscI * (5048) BseRI (4927) SalI (4685) F1ori-R (4508 .. 4527) DraIII (4383) F1ori-F (4296 .. 4317) Amp-R (3791 .. 3810) NmeAIII (3389) SP6 (27 .. 44) BspDI - ClaI (79) BstBI (84) AgeI - SgrAI (137) NcoI (147) Kozak sequence BstEII (175) SphI (344) PflMI (353) XcmI (354) PfoI * (744) AleI (821) BlpI (1085) PspXI (1279) BspEI (1511) attB2 XbaI (1692) SnaBI (1717) EBV-rev (1745 .. 1764) SV40pA-R (1799 .. 1818) HpaI (1855) EagI - NotI (1923) SacII (1929) NsiI (1941) PspOMI (1944) ApaI (1948) BssHII (1987) T3 (1968 .. 1988) M13 rev M13 Reverse (2007 .. 2023) lac operator M13/pUC Reverse (2020 .. 2042) CAP binding site BspQI - SapI (2232) L4440 (2238 .. 2255) AflIII - PciI (2348) pBR322ori-F (2489 .. 2508) pHBS934 TDP43 RRM-GFP M-V 5677 bp

Sequence View

HindIII 5ʹ 3ʹ 60 SP6 promoter A T T T A G G T G A C A C T A T A G SP6 t g c c t g g g g a c g t c g g a g c a a g c t t g a t t t a g g t g a c a c t a t a g a a t a c a a g c t a c t t g t a c g g a c c c c t g c a g c c t c g t t c g a a c t a a a t c c a c t g t g a t a t c t t a t g t t c g a t g a a c a

BstBIBspDIClaI 120 attB1 t c t t t t t g c a g g a t c c c a t c g a t t c g a a t t c a a g g a t c a a c a a g t t t g t a c a a a a a a g c a a g a a a a a c g t c c t a g g g t a g c t a a g c t t a a g t t c c t a g t t g t t c a a a c a t g t t t t t t c g t

BstEIINcoISgrAIAgeI 180 attB1 Kozak sequence MGSMSEYIRVT g g c t g g c g c c g g t a c c a c c g g t g c c a c c a t g g g a t c c a t g t c t g a a t a t a t t c g g g t a a c c c g a c c g c g g c c a t g g t g g c c a c g g t g g t a c c c t a g g t a c a g a c t t a t a t a a g c c c a t t g

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

300 STVTAQFPGACGLRYRNPVS c t c c a c g g t t a c a g c c c a g t t t c c a g g g g c g t g t g g g c t t c g c t a c a g g a a t c c a g t g t c g a g g t g c c a a t g t c g g g t c a a a g g t c c c c g c a c a c c c g a a g c g a t g t c c t t a g g t c a c a g

PflMIXcmISphI 360 QCMRGVRLVEGILHAPDAGW t c a g t g t a t g a g a g g t g t c c g g c t g g t a g a a g g a a t t c t g c a t g c c c c a g a t g c t g g c t g a g t c a c a t a c t c t c c a c a g g c c g a c c a t c t t c c t t a a g a c g t a c g g g g t c t a c g a c c g a c

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

480 DASSAVKVKRAVQKTSSKGE a g a t g c t t c a t c a g c a g t g a a a g t g a a a a g a g c a g t c c a g a a a a c a t c c a g t a a a g g a g a t c t a c g a a g t a g t c g t c a c t t t c a c t t t t c t c g t c a g g t c t t t t g t a g g t c a t t t c c t c t

540 ELFTGTVPIKVELDGDVNGH *KCTSHRDFDLQVAVYVAV g g a a c t a t t t a c a g g t a c t g t g c c t a t c a a a g t c g a g c t g g a c g g c g a c g t a a a c g g c c a c c t t g a t a a a t g t c c a t g a c a c g g a t a g t t t c a g c t c g a c c t g c c g c t g c a t t t g c c g g t

600 KFSVRGEGEGDATEGKLTLK LEAHTALALAIGGLALQGQL c a a g t t c a g c g t g c g t g g c g a g g g c g a g g g c g a t g c c a c c g a g g g c a a g c t g a c c c t g a a g t t c a a g t c g c a c g c a c c g c t c c c g c t c c c g c t a c g g t g g c t c c c g t t c g a c t g g g a c t t

660 FICTTGKLPVPWPTLVTTLT EDAGGALQRHRPRGEHGGQG g t t c a t c t g c a c c a c c g g c a a g c t g c c g g t g c c g t g g c c g a c c c t c g t g a c c a c c c t g a c c a a g t a g a c g t g g t g g c c g t t c g a c g g c c a c g g c a c c g g c t g g g a g c a c t g g t g g g a c t g

720 YGVQCFSRYPDHMKRHDFFK VAHLAEAAVRVVHLTVVEEL c t a c g g c g t g c a g t g c t t c a g c c g c t a c c c g g a c c a c a t g a a g c g t c a c g a c t t c t t c a a g a t g c c g c a c g t c a c g a a g t c g g c g a t g g g c c t g g t g t a c t t c g c a g t g c t g a a g a a g t t

PfoI* 780 SAMPEGYVQERTIEFKDDGT GGHRFAVDLLAGDLELVVAG g t c c g c c a t g c c g g a a g g c t a c g t c c a g g a g c g c a c c a t c g a g t t c a a g g a c g a c g g c a c c a g g c g g t a c g g c c t t c c g a t g c a g g t c c t c g c g t g g t a g c t c a a g t t c c t g c t g c c g t g

AleI 840 YKTRAEVKFEGDTLVNRIEL VLGARLHLELAVGQHVADLQ c t a c a a g a c c c g c g c g g a g g t g a a g t t c g a g g g c g a c a c c c t g g t g a a c c g c a t c g a g c t g a t g t t c t g g g c g c g c c t c c a c t t c a a g c t c c c g c t g t g g g a c c a c t t g g c g t a g c t c g a

900 KGNDFKEDGNILGHKLEYNH LAVVELLVAVDQTVLQLVVV g a a g g g c a a c g a c t t c a a g g a g g a c g g c a a c a t c c t g g g t c a c a a g c t g g a g t a c a a c c a c t t c c c g t t g c t g a a g t t c c t c c t g c c g t t g t a g g a c c c a g t g t t c g a c c t c a t g t t g g t

960 NSHNVRIEADKQKNGIKANF VAVVDTDFGVLLLVADLSVE c a a c a g c c a c a a c g t c c g t a t c g a a g c c g a c a a g c a g a a g a a c g g c a t c a a g g c t a a c t t g t t g t c g g t g t t g c a g g c a t a g c t t c g g c t g t t c g t c t t c t t g c c g t a g t t c c g a t t g a a

1020 KIRHNVEDGSQQEADHKQQN LDAVVNLVAALLFGVVFLLV c a a g a t c c g c c a c a a c g t t g a g g a c g g c a g c c a g c a g g a a g c c g a c c a c a a a c a g c a g a a g t t c t a g g c g g t g t t g c a a c t c c t g c c g t c g g t c g t c c t t c g g c t g g t g t t t g t c g t c t t

1080 TPIGDGPVRLPDNHYLSTQT GRDAVARHAQRVVVIQAGLG c a c c c c g a t c g g c g a c g g c c c g g t g c g c c t g c c g g a c a a c c a c t a t c t g a g c a c c c a g a c g t g g g g c t a g c c g c t g c c g g g c c a c g c g g a c g g c c t g t t g g t g a t a g a c t c g t g g g t c t g

BlpI 1140 TLSKDPNEKRDHMVLKEFVT RQAFVRVLLAIVHDQLLEHR c a c g c t g a g c a a a g a c c c g a a c g a g a a g c g c g a t c a c a t g g t c c t g a a g g a g t t c g t g a c g t g c g a c t c g t t t c t g g g c t t g c t c t t c g c g c t a g t g t a c c a g g a c t t c c t c a a g c a c t g

1200 AAGITKGEDESGSNAEPKHN CGTDSFTFIFTSGIGFRLM g g c a g c c g g t a t c a c t a a a g g t g a a g a t g a a a g t g g a t c c a a t g c c g a a c c t a a g c a t a a c c g t c g g c c a t a g t g a t t t c c a c t t c t a c t t t c a c c t a g g t t a c g g c t t g g a t t c g t a t t

1260 SNRQLERSGRFGGNPGGFGN t a g c a a t c g g c a g c t g g a g c g c a g t g g c c g c t t c g g c g g a a a t c c t g g c g g t t t t g g c a a a t c g t t a g c c g t c g a c c t c g c g t c a c c g g c g a a g c c g c c t t t a g g a c c g c c a a a a c c g t t

PspXI 1320 QGGFGNSRGGGAGLGNNQGS t c a a g g g g g a t t t g g a a a c t c g a g g g g c g g a g g g g c c g g c t t a g g c a a c a a c c a a g g a t c a g t t c c c c c t a a a c c t t t g a g c t c c c c g c c t c c c c g g c c g a a t c c g t t g t t g g t t c c t a g

1380 NVGGGVNFGAFSINPAMMAA a a a c g t a g g g g g g g g c g t c a a c t t t g g g g c t t t t t c t a t t a a t c c c g c t a t g a t g g c a g c t t t g c a t c c c c c c c c g c a g t t g a a a c c c c g a a a a a g a t a a t t a g g g c g a t a c t a c c g t c g

1440 AQAALQSSWGMMGMLASQQN a g c g c a a g c a g c g t t a c a g t c g t c g t g g g g g a t g a t g g g g a t g t t a g c t t c g c a g c a g a a t c g c g t t c g t c g c a a t g t c a g c a g c a c c c c c t a c t a c c c c t a c a a t c g a a g c g t c g t c t t

1500 QSGPSGNNQNQGNVQREPNQ c c a g t c t g g g c c t t c c g g c a a c a a t c a g a a t c a g g g a a a t g t c c a a c g t g a g c c g a a c c a g g t c a g a c c c g g a a g g c c g t t g t t a g t c t t a g t c c c t t t a c a g g t t g c a c t c g g c t t g g t

BspEI 1560 AFGSGNNSYSGSNSGAAIGW g g c a t t t g g g t c c g g a a a t a a c a g c t a t t c a g g a t c t a a t a g c g g c g c t g c a a t t g g t t g c c g t a a a c c c a g g c c t t t a t t g t c g a t a a g t c c t a g a t t a t c g c c g c g a c g t t a a c c a a c

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

1680 attB2 DSKSSGWGV* g g a c a g t a a g t c t t c g g g t t g g g g c g t t t a g a c c c a g c t t t c t t g t a c a a a g t g g t t g a t c c t g t c a t t c a g a a g c c c a a c c c c g c a a a t c t g g g t c g a a a g a a c a t g t t t c a c c a a c t a

SnaBIXbaI 1740 SV40 poly(A) signal c c t c t c g a g c c t c t a g a a c t a t a g t g a g t c g t a t t a c g t a g a t c c a g a c a t g a t a a g a t a g g a g a g c t c g g a g a t c t t g a t a t c a c t c a g c a t a a t g c a t c t a g g t c t g t a c t a t t c t a t

1800 SV40 poly(A) signal G A SV40pA-R C T A C T C A A A C C T G T T T G G T G EBV-rev c a t t g a t g a g t t t g g a c a a a c c a c a a c t a g a a t 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 g t a a c t a c t c a a a c c t g t t t g g t g t t g a t c t t a 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

HpaI 1860 SV40 poly(A) signal A A T T T G T G A T G C T A T T G C SV40pA-R 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 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 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 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

1920 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 g g g g a g g t g t g g g a g g t t t t t t a a 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 c c c c t c c a c a c c c t c c a a a a a a t t a a

NsiIPspOMIApaISacIIEagINotI 1980 T3 promoter G G A A A T C A C T C C C T3 c g c g g c c g c g g c g c c a a t g c a t t g g g c c c g g t a c c c a g c t t t t g t t c c c t t t a g t g a g g g g c g c c g g c g c c g c g g t t a c g t a a c c c g g g c c a t g g g t c g a a a a c a a g g g a a a t c a c t c c c

BssHII 2040 T3 promoter M13 rev lac operator A A T T A A C G T3 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 M13/pUC Reverse t t a a t t g c g c g c t t g 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 a a t t a a c g c g c g a 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

2100 -10 -35 lac operator lac promoter CAP binding site G A M13/pUC Reverse c t c a c a a t t c c a c a c a a c a t a c g a g c c g g g 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 g a g t g t t a a g g t g t g t t g t a t g c t c g g c c c 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

2160 CAP binding site t g a g t g a g c t a a c t c 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 a c t c a c t c g a t t g a 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

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

BspQISapI 2280 G A G C G A G T G A C T G A G C G A L4440 g g g c g c t c t t c c g c t 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 c c c g c g a g a a g g c g a 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

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

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

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

2520 ori T T T C T A T G G T C C G C A A A G G G pBR322ori-F c a g a g g t g g c g a a a c 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 g t c t c c a c c g c t t t g 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

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

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

2700 ori g t t c g c t c c a a g c t g 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 c a a g c g a g g t t c g a c 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

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

2820 ori g c c a c t g g t a a c a g g 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 c g g t g a c c a t t g t c 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

2880 ori t g g t g g c c t a a c t a c 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 a c c a c c g g a t t g a t g 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

2940 ori c c a g t t a c c t t c g g a 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 g g t c a a t g g a a g c c 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

3000 ori a g c g g t g g t t t t t t t 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 t c g c c a c c a a a a a a a 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

3060 g a t c c t t t g a t c t t t 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 c t a g g a a a c t a g a a 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

3120 a t t t t g g t 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 a a a t t a a a a a t g a t a a a a c c a 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 t t t a a t t t t t a c t

3180 285 *WHK AmpR *WHK a g t t t t a a a t c a a t c t a a a g t a t a t a t g a g t a a a c t t g g t c t g a c a g t t a c c a a t g c t t a t c a a a a t t t a g t t a g a t t t c a t a t a t a c t c a t t t g a a c c a g a c t g t c a a t g g t t a c g a a t

3240 280 275 270 265 ILSAGIEAIQRNREDMTAQS AmpR ILSAGIEAIQRNREDMTAQS a t c a g t g a g g c a c c t a t c t c a g c g a t c t g t c t a t t t c g t t c a t c c a t a g t t g c c t g a c t c t a g t c a c t c c g t g g a t a g a g t c g c t a g a c a g a t a a a g c a a g t a g g t a t c a a c g g a c t g a g

3300 260 255 250 245 GTTYIVVIRSPKGDPGLAAI AmpR GTTYIVVIRSPKGDPGLAAI c c c g t c g t g t a g a t a a c t a c g a t a c g g g a g g g c t t a c c a t c t g g c c c c a g t g c t g c a a t g g g g c a g c a c a t c t a t t g a t g c t a t g c c c t c c c g a a t g g t a g a c c g g g g t c a c g a c g t t a c

3360 240 235 230 225 IGRSGREGAGSKDAIFWGAP AmpR IGRSGREGAGSKDAIFWGAP a t a c c g c g a g a c c c a c g c t c a c c g g c t c c a g a t t t a t c a g c a a t a a a c c a g c c a g c c g g a t a t g g c g c t c t g g g t g c g a g t g g c c g a g g t c t a a a t a g t c g t t a t t t g g t c g g t c g g c c t

NmeAIII 3420 220 215 210 205 LASRLLPGAVKDAEMWDILQ AmpR LASRLLPGAVKDAEMWDILQ a g g g c c g a g c g c a g a a g t g g t c c t g c a a c t t t a t c c g c c t c c a t c c a g t c t a t t a a t t g t t c c c g g c t c g c g t c t t c a c c a g g a c g t t g a a a t a g g c g g a g g t a g g t c a g a t a a t t a a c a

3480 200 195 190 185 QRSALTLLEGTLLKRLTTAM AmpR QRSALTLLEGTLLKRLTTAM t g c c g g g a a g c t a g a g t a a g t a g t t c g c c a g t t a a t a g t t t g c g c a a c g t t g t t g c c a t t a c g g c c c t t c g a t c t c a t t c a t c a a g c g g t c a a t t a t c a a a c g c g t t g c a a c a a c g g t a a

3540 180 175 170 165 AVPMTTDREDNPIAENLEPE AmpR AVPMTTDREDNPIAENLEPE g c t a c a g g c a t c g t g g t g t c a c g c t c g t c g t t t g g t a t g g c t t c a t t c a g c t c c g g t t c c c g a t g t c c g t a g c a c c a c a g t g c g a g c a g c a a a c c a t a c c g a a g t a a g t c g a g g c c a a g g

3600 160 155 150 145 WRDLRTVHDGMNHLFATLEK AmpR WRDLRTVHDGMNHLFATLEK c a a c g a t c a a g g c g a g t t a c a t g a t c c c c c a t g t t g t g c a a a a a a g c g g t t a g c t c c t t c g t t g c t a g t t c c g c t c a a t g t a c t a g g g g g t a c a a c a c g t t t t t t c g c c a a t c g a g g a a g

3660 140 135 130 125 PGGITTLLLNAATNDSMTIA AmpR PGGITTLLLNAATNDSMTIA g g t c c t c c g a t c g t t g t c a g a a g t a a g t t g g c c g c a g t g t t a t c a c t c a t g g t t a t g g c a c c a g g a g g c t a g c a a c a g t c t t c a t t c a a c c g g c g t c a c a a t a g t g a g t a c c a a t a c c g t

3720 120 115 110 105 ASCLERVTMGDTLHKETVPS AmpR ASCLERVTMGDTLHKETVPS g c a c t g c a t a a t t c t c t t a c t g t c a t g c c a t c c g t a a g a t g c t t t t c t g t g a c t g g t g a g c g t g a c g t a t t a a g a g a a t g a c a g t a c g g t a g g c a t t c t a c g a a a a g a c a c t g a c c a c t c

3780 100 95 90 85 YEVLDNQSYHIRRGLQEQGA AmpR YEVLDNQSYHIRRGLQEQGA t a c t c a a c c a a g t c a t t c t g a g a a t a g t g t a t g c g g c g a c c g a g t t g c t c t t g c c c g g c g a t g a g t t g g t t c a g t a a g a c t c t t a t c a c a t a c g c c g c t g g c t c a a c g a g a a c g g g c c g c

3840 80 75 70 65 DIRSLVAGCLLVKFTSMMPF AmpR A T A A T A C C G C G C C A C A T A G C Amp-R DIRSLVAGCLLVKFTSMMPF t c a a t a c g g g a t a a t a c c g c g c c a c a t a g c a g a a c t t t a a a a g t g c t c a t c a t t g g a a a a a g t t a t g c c c t a t t a t g g c g c g g t g t a t c g t c t t g a a a t t t t c a c g a g t a g t a a c c t t t t

3900 60 55 50 45 REEPRFSELIKGSNLDLEIY AmpR REEPRFSELIKGSNLDLEIY c g t t c t t c g g g g c g a a a a c t c t c a a g g a t c t t a c c g c t g t t g a g a t c c a g t t c g a t g t a a g c a a g a a g c c c c g c t t t t g a g a g t t c c t a g a a t g g c g a c a a c t c t a g g t c a a g c t a c a t t

3960 40 35 30 25 GVRAGLQDEADKVKVLTEPH AmpR GVRAGLQDEADKVKVLTEPH c c c a c t c g t g c a c c c a a c t g a t c t t c a g c a t c t t t t a c t t t c a c c a g c g t t t c t g g g t g a g g g t g a g c a c g t g g g t t g a c t a g a a g t c g t a g a a a a t g a a a g t g g t c g c a a a g a c c c a c t

4020 20 15 10 5 signal sequence AFVPLCFAAFFPILAVRFHQ AmpR AFVPLCFAAFFPILAVRFHQ g c a a a a a c a g g a a g g c a a a a t g c c g c a a a a a a g g g a a t a a g g g c g a c a c g g a a a t g t t g a c g t t t t t g t c c t t c c g t t t t a c g g c g t t t t t t c c c t t a t t c c c g c t g t g c c t t t a c a a c t

4080 1 signal sequence ISM AmpR AmpR promoter ISM a t a c t c a t a c t c t t c c t t t t t c a a 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 t g t c t c a t g t a t g a g t a t g a g a a g g a a a a a g t t 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 a c a g a g t a c

4140 AmpR promoter 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 c g c a c a t t t 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 g c g t g t a a a

4200 f1 ori c c c c g a a a a g t g c c a c c t a a a t t g t a a g c g t t a a t a t t t t g t t a a a a t t c g c g t t a a a t t g g g g c t t t t c a c g g t g g a t t t a a c a t t c g c a a t t a t a a a a c a a t t t t a a g c g c a a t t t a a

4260 f1 ori t t t g t t a a a t c a g c t c a t t t t t t a a c c a a t a g g c c g a a a t c g g c a a a a t c c c t t a t a a a t a a a c a a t t t a g t c g a g t a a a a a a t t g g t t a t c c g g c t t t a g c c g t t t t a g g g a a t a t t t a

4320 f1 ori G G T C A A A C C T T G T T C T C A G G T G F1ori-F c a a a a g a a t a g a c c g a g a t a g g g t t g a g t g t t g t t c c a g t t t g g a a c a a g a g t c c a c t a t g t t t t c t t a t c t g g c t c t a t c c c a a c t c a c a a c a a g g t c a a a c c t t g t t c t c a g g t g a t a

4380 f1 ori t a a a g a a c g t g g a c t c c a a c g t c a a a g g g c g a a a a a c c g t c t a t c a g g g c g a t g g c c c a c a t t t c t t g c a c c t g a g g t t g c a g t t t c c c g c t t t t t g g c a g a t a g t c c c g c t a c c g g g t g

DraIII 4440 f1 ori t a c g t g a a c c a t c a c c c t a a t c a a g t t t t t t g g g g t c g a g g t g c c g t a a a g c a c t a a a t c a t g c a c t t g g t a g t g g g a t t a g t t c a a a a a a c c c c a g c t c c a c g g c a t t t c g t g a t t t a g

4500 f1 ori g g a a c c c t a a a g g g a g c c c c c g a t t t a g a g c t t g a c g g g g a a a g c c g g c g a a c g t g g c g a c c t t g g g a t t t c c c t c g g g g g c t a a a t c t c g a a c t g c c c c t t t c g g c c g c t t g c a c c g c t

4560 f1 ori A G G G A A G A A A G C G A A A G G A G F1ori-R g a a a g g a a g g g a a g a a a g c g a a a g g a g c g g g c g c t a g g g c g c t g g c a a g t g t a g c g g t c a c t t t c c t t c c c t t c t t t c g c t t t c c t c g c c c g c g a t c c c g c g a c c g t t c a c a t c g c c a g t

4620 f1 ori MRRYRARPI c g c t g c g c g t a a c c a c c a c a c c c g c c g c g c t t a a t g c g c c g c t a c a g g g c g c g t c c c a t t g c g a c g c g c a t t g g t g g t g t g g g c g g c g c g a a t t a c g c g g c g a t g t c c c g c g c a g g g t a a

4680 RHSGCATVGKGDRCGPLRYY c g c c a t t c a g g c t 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 g g t a a g t c c g 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

SalI 4740 CMV IE94 promoter ASRPPIQYGVYGLMPIQYGG g c c a g t c g a c c g c c a a t t c a a t a t g g c g t a t a t g g a c t c a t g c c a a t t c a a t a t g g t g g a c g g t c a g c t g g c g g t t a a g t t a t a c c g c a t a t a c c t g a g t a c g g t t a a g t t a t a c c a c c t

4800 CMV IE94 promoter SGPVPIQYGVYGLVPIQYGG t c t g g a c c t g t g c c a a t t c a a t a t g g c g t a t a t g g a c t c g t g c c a a t t c a a t a t g g t g g a a g a c c t g g a c a c g g t t a a g t t a t a c c g c a t a t a c c t g a g c a c g g t t a a g t t a t a c c a c c t

4860 CMV IE94 promoter SGPQPIQYGGLGTMPIQYGG t c t g g a c c c c a g c c a a t t c a a t a t g g c g g a c t t g g c a c c a t g c c a a t t c a a t a t g g c g g a a g a c c t g g g g t c g g t t a a g t t a t a c c g c c t g a a c c g t g g t a c g g t t a a g t t a t a c c g c c t

4920 CMV IE94 promoter PGTVPTGEGSTWHGAKFEEG c c t g g c a c t g t g c c a a c t g g g g a g g g g t c t a c t t g g c a c g g t g c c a a g t t t g a g g a g g g g g g a c c g t g a c a c g g t t g a c c c c t c c c c a g a t g a a c c g t g c c a c g g t t c a a a c t c c t c c c c

BseRI 4980 CMV IE94 promoter SWPCAKSAILNWHGANNGGH t c t t g g c c c t g t g c c a a g t c c g c c a t a t t g a a t t g g c a t g g t g c c a a t a a t g g c g g c c a t a g a a c c g g g a c a c g g t t c a g g c g g t a t a a c t t a a c c g t a c c a c g g t t a t t a c c g c c g g t a

5040 CMV IE94 promoter IGYMPGSIYRQYPIWPYANM a t t g g c t a t a t g c c a g g a t c a a t a t a t a g g c a a t a t c c a a t a t g g c c c t a t g c c a a t a t g t a a c c g a t a t a c g g t c c t a g t t a t a t a t c c g t t a t a g g t t a t a c c g g g a t a c g g t t a t a c

MscI* 5100 CMV IE94 promoter AIGQVQYYVLALCHIVFHIW g c t a t t g g c c a g g t t c a a t a c t a t g t a t t g g c c c t a t g c c a t a t a g t a t t c c a t a t a t g g c g a t a a c c g g t c c a a g t t a t g a t a c a t a a c c g g g a t a c g g t a t a t c a t a a g g t a t a t a c c

5160 CMV IE94 promoter VFLLT* g t t t t c c t a t t g a c g t a g a t a g c c c c t c c c a a t g g g c g g t c c c a t a t a c c a t a t a t g g g g c a a a a g g a t a a c t g c a t c t a t c g g g g a g g g t t a c c c g c c a g g g t a t a t g g t a t a t a c c c c

5220 CMV IE94 promoter c t t c c t a a t a c c g c c c a t a g c c a c t c c c c c a t t g a c g t c a a t g g t c t c t a t a t a t g g t c t g a a g g a t t a t g g c g g g t a t c g g t g a g g g g g t a a c t g c a g t t a c c a g a g a t a t a t a c c a g a

NdeI 5280 CMV IE94 promoter t t c c t a t t g a c g t c a t a t g g g c g g t c c t a t t g a c g t a t a t g g c g c c t c c c c c a t t g a c g t a a g g a t a a c t g c a g t a t a c c c g c c a g g a t a a c t g c a t a t a c c g c g g a g g g g g t a a c t g c a

5340 CMV IE94 promoter c a a t t a c g g t a a a t g g c c c g c c t g g c t c a a t g c c c a t t g a c g t c a a t a g g a c c a c c c a c c g t t a a t g c c a t t t a c c g g g c g g a c c g a g t t a c g g g t a a c t g c a g t t a t c c t g g t g g g t g g

5400 CMV IE94 promoter a t t g a c g t c a a t g g g a t g g c t c a t t g c c c a t t c a t a t c c g t t c t c a c g c c c c c t a t t g a c t a a c t g c a g t t a c c c t a c c g a g t a a c g g g t a a g t a t a g g c a a g a g t g c g g g g g a t a a c t g

5460 CMV IE94 promoter g t c a a t g a c g g t a a a t g g c c c a c t t g g c a g t a c a t c a a t a t c t a t t a a t a g t a a c t t g g c c a g t t a c t g c c a t t t a c c g g g t g a a c c g t c a t g t a g t t a t a g a t a a t t a t c a t t g a a c c g

5520 CMV IE94 promoter a a g t a c a t t a c t a t t g g a a g t a c g c c a g g g t a c a t t g g c a g t a c t c c c a t t g a c g t c a a t t t c a t g t a a t g a t a a c c t t c a t g c g g t c c c a t g t a a c c g t c a t g a g g g t a a c t g c a g t t a

5580 CMV IE94 promoter g g c g g t a a a t g g c c c g c g a t g g c t g c c a a g t a c a t c c c c a t t g a c g t c a a t g g g g a g g g g c c g c c a t t t a c c g g g c g c t a c c g a c g g t t c a t g t a g g g g t a a c t g c a g t t a c c c c t c c c c

5640 CMV IE94 promoter c a a t g a c g c a a a t g g g c g t t c c a t t g a c g t a a a t g g g c g g t a g g c g t g c c t a a t g g g a g g g t t a c t g c g t t t a c c c g c a a g g t a a c t g c a t t t a c c c g c c a t c c g c a c g g a t t a c c c t c c

3ʹ 5ʹ 5677 CMV IE94 promoter t c t a t a t a a g c a a t g c t c g t t t a g g g a a c c g c c a t t c a g a t a t a t t c g t t a c g a g c a a a t c c c t t g g c g g t a a g

Restriction Enzymes

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

Filter

Features

Primers

BLAST

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

  • Nucleotide-Nucleotide BLAST (BLASTN)

  • Translated Nucleotide-Protein BLAST (BLASTX)

  • Sequence alignment using BLAST (BLAST2)

Sequence Analyzer Guide

Map

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

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

Sequence

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

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

Enzymes

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

Features

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

Primers

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

BLAST

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

File Downloads

GenBank

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

SnapGene

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