Addgene Pro-tRNA-gRNA scaffold for library 1 Sequencing Result - Sequence Analyzer Skip to main content
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Sequence Analyzer: Pro-tRNA-gRNA scaffold for library 1 Sequencing Result


Map View

AflIII - PciI (4883) pBR322ori-F (4728 .. 4747) ApaLI (4569) TK-pA-R (3819 .. 3838) BstBI (3647) Neo-F (3501 .. 3520) RsrII (3481) BsrDI (3198) PflFI - Tth111I (3083) FspI (3067) MscI (3047) PluTI (2968) SfoI (2966) NarI (2965) KasI (2964) Neo-R (2891 .. 2910) BspDI * - ClaI * (2805) StuI (2786) SfiI (2740) CsiI - SexAI * (2554) AseI (48) NdeI (275) SnaBI (381) CMV-F (560 .. 580) NheI (632) BmtI (636) AfeI (637) BglII (650) PaeR7I - XhoI (654) Eco53kI (659) SacI (661) PpuMI (815) TspMI - XmaI (818) SmaI (820) BamHI (868) AgeI (874) EGFP-N (932 .. 953) EXFP-R (1193 .. 1212) EGFP-C (1540 .. 1561) BsrGI (1596) NotI (1609) XbaI * (1619) MfeI (1715) HincII - HpaI (1728) SV40pA-R (1766 .. 1785) EBV-rev (1820 .. 1839) AflII (1847) F1ori-F (1994 .. 2015) DraIII (2081) F1ori-R (2206 .. 2225) pBABE 3' (2468 .. 2488) Pro-tRNA-gRNA scaffold for library 1 4900 bp

Sequence View

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

120 CMV enhancer a t t a c g g g g t c a t t a g t t c a t a g c c c a t a t a t g g a g t t c c g c g t t a c a t a a c t t a c g g t a t a a t g c c c c a g t a a t c a a g t a t c g g g t a t a t a c c t c a a g g c g c a a t g t a t t g a a t g c c a t

180 CMV enhancer a a t g g c c c g c c t g g c t g a c c g c c c a a c g a c c c c c g c c c a t t g a c g t c a a t a a t g a c g t a t t t a c c g g g c g g a c c g a c t g g c g g g t t g c t g g g g g c g g g t a a c t g c a g t t a t t a c t g c a t a

240 CMV enhancer g t t c c c a t a g t a a c g c c a a t a g g g a c t t t c c a t t g a c g t c a a t g g g t g g a g t a t t t a c g g c a a g g g t a t c a t t g c g g t t a t c c c t g a a a g g t a a c t g c a g t t a c c c a c c t c a t a a a t g c c

NdeI 300 CMV enhancer t a a a c t g c c c a c t t g g c a g t a c a t c a a g t g t a t c a t a t g c c a a g t a c g c c c c c t a t t g a c a t t t g a c g g g t g a a c c g t c a t g t a g t t c a c a t a g t a t a c g g t t c a t g c g g g g g a t a a c t g

360 CMV enhancer g t c a a t g a c g g t a a a t g g c c c g c c t g g c a t t a t g c c c a g t a c a t g a c c t t a t g g g a c t t t c a g t t a c t g c c a t t t a c c g g g c g g a c c g t a a t a c g g g t c a t g t a c t g g a a t a c c c t g a a a

SnaBI 420 CMV enhancer CMV promoter c c t a c t t g g c a g t a c a t c t a c g t a t t a g t c a t c g c t a t t a c c a t g g t g a t g c g g t t t t g g g g a t g a a c c g t c a t g t a g a t g c a t a a t c a g t a g c g a t a a t g g t a c c a c t a c g c c a a a a c c

480 CMV promoter c a g t a c a t c a a t g g g c g t g g a t a g c g g t t t g a c t c a c g g g g a t t t c c a a g t c t c c a c c c c g t c a t g t a g t t a c c c g c a c c t a t c g c c a a a c t g a g t g c c c c t a a a g g t t c a g a g g t g g g g

540 CMV promoter a t t g a c g t c a a t g g g a g t t t g t t t t g g c a c c a a a a t c a a c g g g a c t t t c c a a a a t g t c g t t a a c t g c a g t t a c c c t c a a a c a a a a c c g t g g t t t t a g t t g c c c t g a a a g g t t t t a c a g c a

600 CMV promoter C G C A A A T G G G C G G T A G G C G T G CMV-F a a c a a c t c c g c c c c a t t g a c g c a a a t g g g c g g t a g g c g t g t a c g g t g g g a g g t c t a t a t a t t g t t g a g g c g g g g t a a c t g c g t t t a c c c g c c a t c c g c a c a t g c c a c c c t c c a g a t a t a t

BglIIPaeR7IXhoIEco53kINheIBmtIAfeI 660 CMV promoter a g c a g a g c t g g t t t a g t g a a c c g t c a g a t c c g c t a g c g c t a c c g g a c t c a g a t c t c g a g c t c g t c t c g a c c a a a t c a c t t g g c a g t c t a g g c g a t c g c g a t g g c c t g a g t c t a g a g c t c g

SacI 720 t c g g a g c a t c g a g a c g g a a g a c g a g t t t a a g a g c t a t g c t g g a a a c a g c a t a g c a a g t t t a g c c t c g t a g c t c t g c c t t c t g c t c a a a t t c t c g a t a c g a c c t t t g t c g t a t c g t t c a a a

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

PpuMITspMIXmaISmaI 840 g t c t a g g g g t a t g a t t c t c g c t t a g g g t g c g a g a g g t c c c g g g t t c a a a t c c c g g a c g a g c a g a t c c c c a t a c t a a g a g c g a a t c c c a c g c t c t c c a g g g c c c a a g t t t a g g g c c t g c t c

AgeIBamHI 900 1 M 1a V SKG EGFP 1 M 1a V SKG EGFP Kozak sequence MVSKG c c c c t g t c t t c g c g c g t c t c a t c g a g c g g a t c c a c c g g t c g c c a c c a t g g t g a g c a a g g g g g g g a c a g a a g c g c g c a g a g t a g c t c g c c t a g g t g g c c a g c g g t g g t a c c a c t c g t t c c c

960 5 10 15 20 EELFTGVVPILVELDGDVNG EGFP 5 10 15 20 EELFTGVVPILVELDGDVNG EGFP G A C C A G C T C G A C C T G C C G C T G C EGFP-N EELFTGVVPILVELDGDVNG c g a g g a g c t g t t c a c c g g g g t g g t g c c c a t c c t g 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 g c t c c t c g a c a a g t g g c c c c a c c a c g g g t a g g a c 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

1020 25 30 35 40 HKFSVSGEGEGDATYGKLTL EGFP 25 30 35 40 HKFSVSGEGEGDATYGKLTL EGFP HKFSVSGEGEGDATYGKLTL c c a c a a g t t c a g c g t g t c c g g c g a g g g c g a g g g c g a t g c c a c c t a c g g c a a g c t g a c c c t g g t g t t c a a g t c g c a c a g g c c g c t c c c g c t c c c g c t a c g g t g g a t g c c g t t c g a c t g g g a

1080 45 50 55 60 KFICTTGKLPVPWPTLVTTL EGFP 45 50 55 60 KFICTTGKLPVPWPTLVTTL EGFP KFICTTGKLPVPWPTLVTTL g a a 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 c g t g c c c t g g c c c a c c c t c g t g a c c a c c c t c t t 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 g c a c g g g a c c g g g t g g g a g c a c t g g t g g g a

1140 65 70 75 80 TYGVQCFSRYPDHMKQHDFF EGFP 65 70 75 80 TYGVQCFSRYPDHMKQHDFF EGFP TYGVQCFSRYPDHMKQHDFF g a c 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 c g a c c a c a t g a a g c a g c a c g a c t t c t t c t g 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 g c t g g t g t a c t t c g t c g t g c t g a a g a a

1200 85 90 95 100 KSAMPEGYVQERTIFFKDDG EGFP 85 90 95 100 KSAMPEGYVQERTIFFKDDG EGFP C T G C T G C C EXFP-R KSAMPEGYVQERTIFFKDDG c a a g t c c g c c a t g c c c 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 t t c t t c a a g g a c g a c g g g t t c a g g c g g t a c g g g 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 a a g a a g t t c c t g c t g c c

1260 105 110 115 120 NYKTRAEVKFEGDTLVNRIE EGFP 105 110 115 120 NYKTRAEVKFEGDTLVNRIE EGFP G T T G A T G T T C T G EXFP-R NYKTRAEVKFEGDTLVNRIE c a a c t a c a a g a c c c g c g c c 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 t t g a t g t t c t g g g c g c g g 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

1320 125 130 135 140 LKGIDFKEDGNILGHKLEYN EGFP 125 130 135 140 LKGIDFKEDGNILGHKLEYN EGFP LKGIDFKEDGNILGHKLEYN g c t g a a g g g c a t 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 g c a c a a g c t g g a g t a c a a c g a c t t c c c g t a 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 c g t g t t c g a c c t c a t g t t

1380 145 150 155 160 YNSHNVYIMADKQKNGIKVN EGFP 145 150 155 160 YNSHNVYIMADKQKNGIKVN EGFP YNSHNVYIMADKQKNGIKVN c t a c a a c a g c c a c a a c g t c t a t a t c a t g 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 t g a a g a t g t t g t c g g t g t t g c a g a t a t a g t a c 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 a c t t

1440 165 170 175 180 FKIRHNIEDGSVQLADHYQQ EGFP 165 170 175 180 FKIRHNIEDGSVQLADHYQQ EGFP FKIRHNIEDGSVQLADHYQQ c t t c a a g a t c c g c c a c a a c a t c g a g g a c g g c a g c g t g c a g c t c g c c g a c c a c t a c c a g c a g a a g t t c t a g g c g g t g t t g t a g c t c c t g c c g t c g c a c g t c g a g c g g c t g g t g a t g g t c g t

1500 185 190 195 200 NTPIGDGPVLLPDNHYLSTQ EGFP 185 190 195 200 NTPIGDGPVLLPDNHYLSTQ EGFP NTPIGDGPVLLPDNHYLSTQ g a a c a c c c c c a t c g g c g a c g g c c c c g t g c t g c t g c c c g a c a a c c a c t a c c t g a g c a c c c a c t t g t g g g g g t a g c c g c t g c c g g g g c a c g a c g a c g g g c t g t t g g t g a t g g a c t c g t g g g t

1560 205 210 215 220 SALSKDPNEKRDHMVLLEFV EGFP 205 210 215 220 SALSKDPNEKRDHMVLLEFV EGFP C A T G G T C C T G C T G G A G T T C G T EGFP-C SALSKDPNEKRDHMVLLEFV g t c c g c c c t g a g c a a a g a c c c c 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 c t g g a g t t c g t c a g g c g g g a c t c g t t t c t g g g g 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 g a c c t c a a g c a

XbaI*NotIBsrGI 1620 225 230 235 TAAGITLGMDELYK* EGFP 225 230 235 TAAGITLGMDELYK * EGFP G EGFP-C TAAGITLGMDELYK* g a c c g c c g c c g g g a t c a c t c t 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 a g c g g c c g c g a c t c c t g g c g g c g g c c c t a g t g a g a 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 t c g c c g g c g c t g a g

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

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

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

AflII 1860 SV40 poly(A) signal f1 ori G T G G T T T G T C C A A A C T C A T C EBV-rev t t t t c a c t g c a t t c t a g t t g t g g t t t g t c c a a a c t c a t c a a t g t a t c t t a a g g c g t a a a t a a a a g t g a c g t a a g a t c a a c a c c a a a c a g g t t t g a g t a g t t a c a t a g a a t t c c g c a t t t a

1920 f1 ori 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 t t t g t t a a a t c a g c t c a t t t t t 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 a a a c a a t t t a g t c g a g t a a a a a

1980 f1 ori 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 c a a a a g a a t a g a c c g a g a t a g g 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 g t t t t c t t a t c t g g c t c t a t c c

2040 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 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 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 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 a t t t c t t g c a c c t g a g g t t g c a

DraIII 2100 f1 ori 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 t a c g t g a a c c a t c a c c c t a a t c 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 a t g c a c t t g g t a g t g g g a t t a g

2160 f1 ori 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 g g a a c c c t a a a g g g a g c c c c c 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 c c t t g g g a t t t c c c t c g g g g g c

2220 f1 ori A G G G A A G A A A G C G A A F1ori-R 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 g a a a g g a a g g g a a g a a a g c g a a 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 c t t t c c t t c c c t t c t t t c g c t t

2280 f1 ori A G G A G F1ori-R 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 g c t g c g c g t a a c c a c c a c a c c 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 g c g a c g c g c a t t g g t g g t g t g g

2340 f1 ori AmpR promoter 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 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 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 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

2400 AmpR promoter 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 c a t g a g a c a 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 g t a c t c t g t

2460 AmpR promoter SV40 promoter SV40 enhancer 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 c c t g a g g c g g a a a g a a c 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 g g a c t c c g c c t t t c t t g

2520 SV40 promoter SV40 enhancer C C T T A C A C A C A G T C A A T C C C A pBABE 3' c a g c t g t g g a a t g t g t g t c a g t t a g g g t g t g g a a a g t c c c c a g g c t c c c c a g c a g g c a g a g t c g a c a c c t t a c a c a c a g t c a a t c c c a c a c c t t t c a g g g g t c c g a g g g g t c g t c c g t c t

SexAI*CsiI 2580 SV40 promoter SV40 enhancer a g t a t g c a a a g c a t g c a t c t c a a t t a g t c a g c a a c c a g g t g t g g a a a g t c c c c a g g c t c c t c a t a c g t t t c g t a c g t a g a g t t a a t c a g t c g t t g g t c c a c a c c t t t c a g g g g t c c g a g g

2640 SV40 promoter SV40 enhancer c c a g c a g g c a g a a g t a t g c a a a g c a t g c a t c t c a a t t a g t c a g c a a c c a t a g t c c c g c c c g g t c g t c c g t c t t c a t a c g t t t c g t a c g t a g a g t t a a t c a g t c g t t g g t a t c a g g g c g g g

2700 SV40 promoter SV40 ori c t a a c t c c g c c c a t c c c g c c c c t a a c t c c g c c c a g t t c c g c c c a t t c t c c g c c c c a t g g c g a t t g a g g c g g g t a g g g c g g g g a t t g a g g c g g g t c a a g g c g g g t a a g a g g c g g g g t a c c g

SfiI 2760 SV40 promoter SV40 ori t g a c t a a t t t t t t t t a t t t a t g c a g a g g c c g a g g c c g c c t c g g c c t c t g a g c t a t t c c a g a c t g a t t a a a a a a a a t a a a t a c g t c t c c g g c t c c g g c g g a g c c g g a g a c t c g a t a a g g t c

BspDI*ClaI*StuI 2820 SV40 promoter SV40 ori a a g t a g t g a g g a g g c t t t t t t g g a g g c c t a g g c t t t t g c a a a g a t c g a t c a a g a g a c a g g t t c a t c a c t c c t c c g a a a a a a c c t c c g g a t c c g a a a a c g t t t c t a g c t a g t t c t c t g t c c

2880 1 5 10 15 MIEQDGLHAGSPAAW NeoR/KanR 1 5 10 15 MIEQDGLHAGSPAAW NeoR/KanR MIEQDGLHAGSPAAW a t g a g g a t c g t t t c g c 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 t a c t c c t a g c a a a g c g 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

2940 20 25 30 35 VERLFGYDWAQQTIGCSDAA NeoR/KanR 20 25 30 35 VERLFGYDWAQQTIGCSDAA NeoR/KanR G A T A A G C C G A T A C T G A C C C G Neo-R VERLFGYDWAQQTIGCSDAA g g t g g a g a g g c t a t t c 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 c a c c t c t c c g a t a a g 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

KasINarISfoIPluTI 3000 40 45 50 55 VFRLSAQGRPVLFVKTDLSG NeoR/KanR 40 45 50 55 VFRLSAQGRPVLFVKTDLSG NeoR/KanR VFRLSAQGRPVLFVKTDLSG c g t g t t c c g g c t g t c a 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 g c a c a a g g c c g a c a g t 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

MscI 3060 60 65 70 75 ALNELQDEAARLSWLATTGV NeoR/KanR 60 65 70 75 ALNELQDEAARLSWLATTGV NeoR/KanR ALNELQDEAARLSWLATTGV t g c c c t g a a t g a a c t g 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 a c g g g a c t t a c t t g a c 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

Tth111IPflFIFspI 3120 80 85 90 95 PCAAVLDVVTEAGRDWLLLG NeoR/KanR 80 85 90 95 PCAAVLDVVTEAGRDWLLLG NeoR/KanR PCAAVLDVVTEAGRDWLLLG t c c t t g c g c a g c t g t g 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 a g g a a c g c g t c g a c a c 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

3180 100 105 110 115 EVPGQDLLSSHLAPAEKVSI NeoR/KanR 100 105 110 115 EVPGQDLLSSHLAPAEKVSI NeoR/KanR EVPGQDLLSSHLAPAEKVSI *RVKSRGLFYGD c g a a g t g c c g g g g c a g 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 g c t t c a c g g c c c c g t c 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

BsrDI 3240 120 125 130 135 MADAMRRLHTLDPATCPFDH NeoR/KanR 120 125 130 135 MADAMRRLHTLDPATCPFDH NeoR/KanR MADAMRRLHTLDPATCPFDH HSICHPPQMRKIRSGAWEVV c a t g g c t g a t g c a a t g 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 g t a c c g a c t a c g t t a 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

3300 140 145 150 155 QAKHRIERARTRMEAGLVDQ NeoR/KanR 140 145 150 155 QAKHRIERARTRMEAGLVDQ NeoR/KanR QAKHRIERARTRMEAGLVDQ LRFMADLSCTSPHFGTKDIL c c a a g c g a a a c a t c g c 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 t t c g c t t t g t a g c g 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

3360 160 165 170 175 DDLDEEHQGLAPAELFARLK NeoR/KanR 160 165 170 175 DDLDEEHQGLAPAELFARLK NeoR/KanR DDLDEEHQGLAPAELFARLK IIQVFLMLPERWGFQEGPEL g g a t g a t c t g g a c g a a 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 c c t a c t a g a c c t g c t t 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

3420 180 185 190 195 ASMPDGEDLVVTHGDACLPN NeoR/KanR 180 185 190 195 ASMPDGEDLVVTHGDACLPN NeoR/KanR ASMPDGEDLVVTHGDACLPN RAHGVALIEDHGMAIGAQRI g g c g a g c a t g c c c g a c 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 c c g c t c g t a c g g g c t g 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

3480 200 205 210 215 IMVENGRFSGFIDCGRLGVA NeoR/KanR 200 205 210 215 IMVENGRFSGFIDCGRLGVA NeoR/KanR IMVENGRFSGFIDCGRLGVA DHHFIAAKRSEDVTAPQTHR t a t c a t g g t g g a a a a t 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 a t a g t a c c a c c t t t t a 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

RsrII 3540 220 225 230 235 DRYQDIALATRDIAEELGGE NeoR/KanR 220 225 230 235 DRYQDIALATRDIAEELGGE NeoR/KanR C G T T G G C T A C C C G T G A T A T T Neo-F DRYQDIALATRDIAEELGGE VAILVYRQSGTINSFLKAAF g g a c c g c t a t c a g g a c 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 c c t g g c g a t a g t c c t g 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

3600 240 245 250 255 WADRFLVLYGIAAPDSQRIA NeoR/KanR 240 245 250 255 WADRFLVLYGIAAPDSQRIA NeoR/KanR WADRFLVLYGIAAPDSQRIA PSVAEEHKVTDGSGIRLADG a t g g g c t g a c c g c t t c 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 t a c c c g a c t g g c g a a g 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

BstBI 3660 260 265 FYRLLDEFF* NeoR/KanR 260 265 FYRLLDEFF* NeoR/KanR MTD FYRLLDEFF* EIAKKVLEESRSEPTRFSRG c t t c t a t c g c c t t c t t g a c g a g t t c t t c t g a g c g g g a c t c t g g g g t t c g a a a t g a c c g a c g a a g a t a g c g g a a g a a c t g c t c a a g a a g a c t c g c c c t g a g a c c c c a a g c t t t a c t g g c t g

3720 QATPNLPSRDFDSTAAFYER LSAWGAM c a a g c g a c g c c c a a c c t g c c a t c a c g a g a t t t c g a t t c c a c c g c c g c c t t c t a t g a a a g g g t t c g c t g c g g g t t g g a c g g t a g t g c t c t a a a g c t a a g g t g g c g g c g g a a g a t a c t t t c c

3780 LGFGIVFRDAGWMILQRGDL t t g g g c t t c g g a a t c g t t t t c c g g g a c g c c g g c t g g a t g a t c c t c c a g c g c g g g g a t c t c a a c c c g a a g c c t t a g c a a a a g g c c c t g c g g c c g a c c t a c t a g g a g g t c g c g c c c c t a g a g

3840 A C T T T G T G C C T T C C T C T G T T TK-pA-R MLEFFAHPRGRLTETRKETI a t g c t g g a g t t c t t c g c c c a c c c t a g g g g g a g g c t a a c t g a a a c a c g g a a g g a g a c a a t a t a c g a c c t c a a g a a g c g g g t g g g a t c c c c c t c c g a t t g a c t t t g t g c c t t c c t c t g t t a t

3900 HSV TK poly(A) signal PEGTRAMTAIKRQNKTHGVG c c g g a a g g a a c c c g c g c t a t g a c g g c a a t a a a a a g a c a g a a t a a a a c g c a c g g t g t t g g g g g c c t t c c t t g g g c g c g a t a c t g c c g t t a t t t t t c t g t c t t a t t t t g c g t g c c a c a a c c c

3960 HSV TK poly(A) signal SFVHKRGVRSQGWHSVDTPP t c g t t t g t t c a t a a a c g c g g g g t t c g g t c c c a g g g c t g g c a c t c t g t c g a t a c c c c a c c g a g c a a a c a a g t a t t t g c g c c c c a a g c c a g g g t c c c g a c c g t g a g a c a g c t a t g g g g t g g c

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

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

4140 GYSYIL* g g 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 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 c c 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 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

4200 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 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 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 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

4260 ori 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 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 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 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

4320 ori 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 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 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 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

4380 ori 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 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 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 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

4440 ori 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 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 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 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

4500 ori 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 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 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 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

4560 ori 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 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 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 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

ApaLI 4620 ori 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 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 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 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

4680 ori 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 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 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 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

4740 ori G G G A A A C G C C T G G pBR322ori-F 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 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 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 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

4800 ori T A T C T T T pBR322ori-F 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 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 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 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

4860 ori 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 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 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 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

AflIIIPciI 3ʹ 5ʹ 4900 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 t c t t t c c t g c g t 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 a g a a a g g a c g c 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.