Addgene pAAV-Ef1a-Con/Foff 2.0-EYFP - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pAAV-Ef1a-Con/Foff 2.0-EYFP


Map View

pBR322ori-F (6475 .. 6494) AlwNI (6221) AseI (5567) FspI (5519) PvuI (5373) ScaI (5261) Amp-R (5173 .. 5192) pBRforEco (4764 .. 4782) pGEX 3' (4704 .. 4726) pRS-marker (4585 .. 4604) PsiI (4471) F1ori-F (4410 .. 4431) F1ori-R (4200 .. 4219) RsrII (3883) PmlI (3878) BstEII (3870) BstXI (3816) BlpI (3709) NsiI (3700) SphI (3698) hGH-PA-R (3581 .. 3600) AfeI (3363) MluI (150) MfeI (313) AgeI (320) AflII (620) BfuAI - BspMI (765) PspOMI (854) ApaI (858) FseI (945) PasI (989) BstAPI (1021) Eco53kI (1067) SacI (1069) EF1a-F (1367 .. 1387) BamHI (1420) loxN SalI (1544) EGFP-N (1656 .. 1677) NcoI (1719) Kozak sequence SpeI (1729) loxN Acc65I (1853) KpnI (1857) AscI (1978) HpaI (2025) EXFP-R (2200 .. 2219) EGFP-C (2547 .. 2568) BsrGI (2603) NheI (2614) BmtI (2618) BstBI (2736) EcoRI (2738) EcoRV (2746) WPRE-R (2815 .. 2835) PflMI (3003) pAAV-Ef1a-Con/Foff 2.0-EYFP 6635 bp

Sequence View

60 AAV2 ITR AAV2 ITR QLCSRARESVSAARAFGPRR c c t g c a g g c a g c t g c g c g c t c g c t c g c t c a c t g a g g c c g c c c g g g c a a a g c c c g g g c g t c g g a c g t c c g t c g a c g c g c g a g c g a g c g a g t g a c t c c g g c g g g c c c g t t t c g g g c c c g c a g

120 AAV2 ITR AAV2 ITR AVKPRGAETLSRARLSPTAL g g g c g a c c t t t g g t c g c c c g g c c t c a g t g a g c g a g c g a g c g c g c a g a g a g g g a g t g g c c a c c c g c t g g a a a c c a g c g g g c c g g a g t c a c t c g c t c g c t c g c g c g t c t c t c c c t c a c c g g t

MluI 180 AAV2 ITR AAV2 ITR EMVLPEQPRVRLSQLSPYLK a c t c c a t c a c t a g g g g t t c c t g c g g c c g c a c g c g t a a g c t t t g c a a a g a t g g a t a a a g t t t g a g g t a g t g a t c c c c a a g g a c g c c g g c g t g c g c a t t c g a a a c g t t t c t a c c t a t t t c a a

240 LCLPIKAALPGELDQFSHSN t t a a a c a g a g a g g a a t c t t t g c a g c t a a t g g a c c t t c t a g g t c t t g a a a g g a g t g g g a a t a a t t t g t c t c t c c t t a g a a a c g t c g a t t a c c t g g a a g a t c c a g a a c t t t c c t c a c c c t t a

300 EF-1 α promoter AGTGTLPCLACRGCDGLLQP t g g c t c c g g t g c c c g t c a g t g g g c a g a g c g c a c a t c g c c c a c a g t c c c c g a g a a g t t g g g a c c g a g g c c a c g g g c a g t c a c c c g t c t c g c g t g t a g c g g g t g t c a g g g g c t c t t c a a c c c

AgeIMfeI 360 EF-1 α promoter SPDAISGTGLSPPAPYVPFT g g g a g g g g t c g g c a a t t g a a c c g g t g c c t a g a g a a g g t g g c g c g g g g t a a a c t g g g a a a g c c c t c c c c a g c c g t t a a c t t g g c c a c g g a t c t c t t c c a c c g c g c c c c a t t t g a c c c t t t c

420 EF-1 α promoter IDHVPEAKKGLTPSFRIYTC t g a t g t c g t g t a c t g g c t c c g c c t t t t t c c c g a g g g t g g g g g a g a a c c g t a t a t a a g t g c a c t a c a g c a c a t g a c c g a g g c g g a a a a a g g g c t c c c a c c c c c t c t t g g c a t a t a t t c a c g

480 EF-1 α promoter EF-1 α intron A YDGHVNKKAVPKGGSCLYTG a g t a g t c g c c g t g a a c g t t c t t t t t c g c a a c g g g t t t g c c g c c a g a a c a c a g g t a a g t g c t c a t c a g c g g c a c t t g c a a g a a a a a g c g t t g c c c a a a c g g c g g t c t t g t g t c c a t t c a c g

540 EF-1 α promoter EF-1 α intron A HTTGAPRAEKRTIARAHRSN c g t g t g t g g t t c c c g c g g g c c t g g c c t c t t t a c g g g t t a t g g c c c t t g c g t g c c t t g a a t g c a c a c a c c a a g g g c g c c c g g a c c g g a g a a a t g c c c a a t a c c g g g a a c g c a c g g a a c t t a

600 EF-1 α promoter EF-1 α intron A SGSAATRSEQDRAEPQFHTP t a c t t c c a c t g g c t g c a g t a c g t g a t t c t t g a t c c c g a g c t t c g g g t t g g a a g t g g g t g g a t g a a g g t g a c c g a c g t c a t g c a c t a a g a a c t a g g g c t c g a a g c c c a a c c t t c a c c c a c c

AflII 660 EF-1 α promoter EF-1 α intron A SNSAKRKLLGKAEHKLQPRA g a g a g t t c g a g g c c t t g c g c t t a a g g a g c c c c t t c g c c t c g t g c t t g a g t t g a g g c c t g g c t c t c a a g c t c c g g a a c g c g a a t t c c t c g g g g a a g c g g a g c a c g a a c t c a a c t c c g g a c c

720 EF-1 α promoter EF-1 α intron A QASPGGRAFRTAGERRDRQK c c t g g g c g c t g g g g c c g c c g c g t g c g a a t c t g g t g g c a c c t t c g c g c c t g t c t c g c t g c t g g a c c c g c g a c c c c g g c g g c g c a c g c t t a g a c c a c c g t g g a a g c g c g g a c a g a g c g a c g a

BspMIBfuAI 780 EF-1 α promoter EF-1 α intron A RYTELWKFNKIVQQSAKKRA t t c g a t a a g t c t c t a g c c a t t t a a a a t t t t t g a t g a c c t g c t g c g a c g c t t t t t t t c t g g a a g c t a t t c a g a g a t c g g t a a a t t t t a a a a a c t a c t g g a c g a c g c t g c g a a a a a a a g a c c

840 EF-1 α promoter EF-1 α intron A LYDQLHPGLDACQYKPKQPR c a a g a t a g t c t t g t a a a t g c g g g c c a a g a t c t g c a c a c t g g t a t t t c g g t t t t t g g g g c c g t t c t a t c a g a a c a t t t a c g c c c g g t t c t a g a c g t g t g a c c a t a a a g c c a a a a a c c c c g g

PspOMIApaI 900 EF-1 α promoter EF-1 α intron A PRRRPGHTGACMNPSAPGAL g c g g g c g g c g a c g g g g c c c g t g c g t c c c a g c g c a c a t g t t c g g c g a g g c g g g g c c t g c g a c g c c c g c c g c t g c c c c g g g c a c g c a g g g t c g c g t g t a c a a g c c g c t c c g c c c c g g a c g c t

FseI 960 EF-1 α promoter EF-1 α intron A AAVSFRVPTTELQGAQEPAQ g c g c g g c c a c c g a g a a t c g g a c g g g g g t a g t c t c a a g c t g g c c g g c c t g c t c t g g t g c c t c g c g c c g g t g g c t c t t a g c c t g c c c c c a t c a g a g t t c g a c c g g c c g g a c g a g a c c a c g g a

PasI 1020 EF-1 α promoter EF-1 α intron A GRAATYRGARPPLAPGTPVL g g c c t c g c g c c g c c g t g t a t c g c c c c g c c c t g g g c g g c a a g g c t g g c c c g g t c g g c a c c a c c g g a g c g c g g c g g c a c a t a g c g g g g c g g g a c c c g c c g t t c c g a c c g g g c c a g c c g t g g t

Eco53kISacIBstAPI 1080 EF-1 α promoter EF-1 α intron A QTLPFIAAERGQQLSSLISS g t t g c g t g a g c g g a a a g a t g g c c g c t t c c c g g c c c t g c t g c a g g g a g c t c a a a a t g g a g g c a a c g c a c t c g c c t t t c t a c c g g c g a a g g g c c g g g a c g a c g t c c c t c g a g t t t t a c c t c c

1140 EF-1 α promoter EF-1 α intron A AASPLAPPHTVWVFSFPRET a c g c g g c g c t c g g g a g a g c g g g c g g g t g a g t c a c c c a c a c a a a g g a a a a g g g c c t t t c c g t g c g c c g c g a g c c c t c t c g c c c g c c c a c t c a g t g g g t g t g t t t c c t t t t c c c g g a a a g g c

1200 EF-1 α promoter EF-1 α intron A RLRRKM t c c t c a g c c g t c g c t t c a t g t g a c t c c a c g g a g t a c c g g g c g c c g t c c a g g c a c c t c g a t a g g a g t c g g c a g c g a a g t a c a c t g a g g t g c c t c a t g g c c c g c g g c a g g t c c g t g g a g c t a

1260 EF-1 α promoter EF-1 α intron A t a g t t c t c g a g c t t t t g g a g t a c g t c g t c t t t a g g t t g g g g g g a g g g g t t t t a t g c g a t g a t c a a g a g c t c g a a a a c c t c a t g c a g c a g a a a t c c a a c c c c c c t c c c c a a a a t a c g c t a c

1320 EF-1 α promoter EF-1 α intron A g a g t t t c c c c a c a c t g a g t g g g t g g a g a c t g a a g t t a g g c c a g c t t g g c a c t t g a t g t a a c t c a a a g g g g t g t g a c t c a c c c a c c t c t g a c t t c a a t c c g g t c g a a c c g t g a a c t a c a t t

1380 EF-1 α promoter EF-1 α intron A T C A A G C C T C A G A C A EF1a-F t t c t c c t t g g a a t t t g c c c t t t t t g a g t t t g g a t c t t g g t t c a t t c t c a a g c c t c a g a c a a a g a g g a a c c t t a a a c g g g a a a a a c t c a a a c c t a g a a c c a a g t a a g a g t t c g g a g t c t g t

BamHI 1440 EF-1 α promoter lox2272 EF-1 α intron A G T G G T T C EF1a-F g t g g t t c a a a g t t t t t t t c t t c c a t t t c a g g t g t c g t g a g g a t c c a t a a c t t c g t a t a g g c a c c a a g t t t c a a a a a a a g a a g g t a a a g t c c a c a g c a c t c c t a g g t a t t g a a g c a t a t c c

1500 lox2272 a t a c t t t a t a c g a a g t t a t g t a g c t g g a g c a a t t t g a a a a g a t t g t t g t a t t a c c t c t a g t a t g a a a t a t g c t t c a a t a c a t c g a c c t c g t t a a a c t t t t c t a a c a a c a t a a t g g a g a t c

SalI 1560 loxN c t g c g c t t a a t a a c t t c g t a t a g t a t a c c t t a t a c g a a g t t a t g t c g a c c c t c c t g t a c t g a c g c g a a t t a t t g a a g c a t a t c a t a t g g a a t a t g c t t c a a t a c a g c t g g g a g g a c a t g a

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

1680 C G T C G C C G T C C A G C T C G A C C A G EGFP-N g c c c t c g c c g g a c a c g c t g a a c t t g t g g c c g t t t a c g t c g c c g t c c a g c t c g a c c a g g a t c g g g a g c g g c c t g t g c g a c t t g a a c a c c g g c a a a t g c a g c g g c a g g t c g a g c t g g t c c t a

SpeINcoI 1740 Kozak sequence lox2272 g g g c a c c a c c c c g g t g a a c a g c t c c t c g c c c t t g c t c a c c a t g g t g g c a c t a g t a t a a c t c c c g t g g t g g g g c c a c t t g t c g a g g a g c g g g a a c g a g t g g t a c c a c c g t g a t c a t a t t g a

1800 lox2272 t c g t a t a a a g t a t c c t a t a c g a a g t t a t t t g c c t t a a c c c a g a a a t t a t c a c t g t t a t t c a g c a t a t t t c a t a g g a t a t g c t t c a a t a a a c g g a a t t g g g t c t t t a a t a g t g a c a a t a a g

Acc65IKpnI 1860 loxN FRT (minimal) t t t a g a t a g g t g c a a a g a a t a a c t t c g t a t a a g g t a t a c t a t a c g a a g t t a t g g t a c c g a a a a t c t a t c c a c g t t t c t t a t t g a a g c a t a t t c c a t a t g a t a t g c t t c a a t a c c a t g g c t

1920 FRT (minimal) a g t t c c t a t t c t c t a g a a a g t a t a g g a a c t t c g c a g a a t g g t a g c t g g a t t g t a g c t g c t t c a a g g a t a a g a g a t c t t t c a t a t c c t t g a a g c g t c t t a c c a t c g a c c t a a c a t c g a c g a

AscI 1980 MKPLRSSYSSKGIGTSA a t t a g c a a t a t g a a a c c t c t t a g a a g t t c c t a t t c t t c a a a a g g t a t a g g a a c t t c g g c g t a a t c g t t a t a c t t t g g a g a a t c t t c a a g g a t a a g a a g t t t t c c a t a t c c t t g a a g c c g c

HpaI 2040 RLESGQPFSCSENMVNWLSH c g c c t g g a g a g t g g c c a g c c c t t c t c a t g t t c a g a g a a c a t g g t t a a c t g g t t a a g t c a t g c g g a c c t c t c a c c g g t c g g g a a g a g t a c a a g t c t c t t g t a c c a a t t g a c c a a t t c a g t a

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

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

2220 C T G C T G C C G T T G A T G T T C T G EXFP-R PEGYVQERTIFFKDDGNYKT 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 c a a c t a c a a g a c 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 g t t g a t g t t c t g g

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

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

2400 155 160 165 DKQKNGIKVNFKIR VC155 NVYIMADKQKNGIKVNFKIR 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 c t t c a a g a t c c g c 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 g a a g t t c t a g g c g

2460 170 175 180 185 HNIEDGSVQLADHYQQNTPI VC155 HNIEDGSVQLADHYQQNTPI 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 c a c c c c c a t c 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 c t t g t g g g g g t a g

2520 190 195 200 205 GDGPVLLPDNHYLSYQSALS VC155 GDGPVLLPDNHYLSYQSALS 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 t a c c a g t c c g c c c t g a g c 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 a t g g t c a g g c g g g a c t c g

2580 210 215 220 225 KDPNEKRDHMVLLEFVTAAG VC155 C A T G G T C C T G C T G G A G T T C G T G EGFP-C KDPNEKRDHMVLLEFVTAAG 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 g a c c g c c g c c g g 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 c t g g c g g c g g c c c

BmtINheIBsrGI 2640 230 235 ITLGMDELYK * VC155 FRT (minimal) ITLGMDELYK* 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 g c t a g c g a a g t t c c t a t a c t t t c t a g a 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 c g a t c g c t t c a a g g a t a t g a a a g a t c t

2700 FRT (minimal) g a a t a g g a a c t t c t a a g c a g a c a a t c t t g t a a t a c a t c a g c a g c t a g t a g a t t g c t c c a g c t t a t c c t t g a a g a t t c g t c t g t t a g a a c a t t a t g t a g t c g t c g a t c a t c t a a c g a g g t c

EcoRVBstBIEcoRI 2760 c t a g a a g t t c c t a t a c c t t t t g a a g a a t a g g a a c t t c g a a t t c g a t a t c a a g c t t a t c g a g a t c t t c a a g g a t a t g g a a a a c t t c t t a t c c t t g a a g c t t a a g c t a t a g t t c g a a t a g c t

2820 WPRE A C A A C G WPRE-R t a a t c a a c c t c t g g a t t a c a a a a t t t g t g a a a g a t t g a c t g g t a t t c t t a a c t a t g t t g c a t t a g t t g g a g a c c t a a t g t t t t a a a c a c t t t c t a a c t g a c c a t a a g a a t t g a t a c a a c g

2880 WPRE A G G A A A A T G C G A T A C WPRE-R MPLYHAIASR MLLLP t c c t t t t a c g c t a t g t g g a t a c g c t g c t t t a a t g c c t t t g t a t c a t g c t a t t g c t t c c c g a g g a a a a t g c g a t a c a c c t a t g c g a c g a a a t t a c g g a a a c a t a g t a c g a t a a c g a a g g g c

2940 WPRE MAFIFSSLYKSWLLSLYEEL VWLSFSPPCINPGCCLFMRS t a t g g c t t t c a t t t t c t c c t c c t t g t a t a a a t c c t g g t t g c t g t c t c t t t a t g a g g a g t t a t a c c g a a a g t a a a a g a g g a g g a a c a t a t t t a g g a c c a a c g a c a g a g a a a t a c t c c t c a a

3000 WPRE WPVVRQRGVVCTVFADATPT CGPLSGNVAWCALCLLTQPP g t g g c c c g t t g t c a g g c a a c g t g g c g t g g t g t g c a c t g t g t t t g c t g a c g c a a c c c c c a c c a c c g g g c a a c a g t c c g t t g c a c c g c a c c a c a c g t g a c a c a a a c g a c t g c g t t g g g g g t g

PflMI 3060 WPRE GWGIATTCQLLSGTFAFPLP LVGALPPPVSSFPGLSLSPS t g g t t g g g g c a t t g c c a c c a c c t g t c a g c t c c t t t c c g g g a c t t t c g c t t t c c c c c t c c c a c c a a c c c c g t a a c g g t g g t g g a c a g t c g a g g a a a g g c c c t g a a a g c g a a a g g g g g a g g g

3120 WPRE IATAELIAACLARCWTGARL LLPRRNSSPPALPAAGQGLG t a t t g c c a c g g c g g a a c t c a t c g c c g c c t g c c t t g c c c g c t g c t g g a c a g g g g c t c g g c t a t a a c g g t g c c g c c t t g a g t a g c g g c g g a c g g a a c g g g c g a c g a c c t g t c c c c g a g c c g a

3180 WPRE (in frame with Factor Xa site) *RGKRPQE LGTDNSVVLSGKSSSFPWLL CWALTIPWCCRGNHRPFLGC g t t g g g c a c t g a c a a t t c c g t g g t g t t g t c g g g g a a a t c a t c g t c c t t t c c t t g g c t g c t c a a c c c g t g a c t g t t a a g g c a c c a c a a c a g c c c c t t t a g t a g c a g g a a a g g a a c c g a c g a

3240 WPRE (in frame with Factor Xa site) GTNGGPNQAPRGEAVDR RGE Factor Xa site ACVATWILRGTSFCYVPSAL SPVLPPGFCAGRPSATSLRP c g c c t g t g t t g c c a c c t g g a t t c t g c g c g g g a c g t c c t t c t g c t a c g t c c c t t c g g c c c t g c g g a c a c a a c g g t g g a c c t a a g a c g c g c c c t g c a g g a a g a c g a t g c a g g g a a g c c g g g a

3300 WPRE 1 I Factor Xa site NPADLPSRGLLPALRPLPRL SIQRTFLPAACCRLCGLFRV c a a t c c a g c g g a c c t t c c t t c c c g c g g c c t g c t g c c g g c t c t g c g g c c t c t t c c g c g t c t g t t a g g t c g c c t g g a a g g a a g g g c g c c g g a c g a c g g c c g a g a c g c c g g a g a a g g c g c a g a

3360 WPRE RLRPQTSRISLWAASPHRYR FAFALRRVGSPFGPPPRIDT t c g c c t t c g c c c t c a g a c g a g t c g g a t c t c c c t t t g g g c c g c c t c c c c g c a t c g a t a c c g a g c g g a a g c g g g a g t c t g c t c a g c c t a g a g g g a a a c c c g g c g g a g g g g c g t a g c t a t g g c

AfeI 3420 hGH poly(A) signal ALLERSTGGIPVTPPQCLSW ERCSRDLRVASL* a g c g c t g c t c g a g a g a t c t a c g g g t g g c a t c c c t g t g a c c c c t c c c c a g t g c c t c t c c t g t c g c g a c g a g c t c t c t a g a t g c c c a c c g t a g g g a c a c t g g g g a g g g g t c a c g g a g a g g a c

3480 hGH poly(A) signal PWKLPLQCPPALS* g c c c t g g a a g t t g c c a c t c c a g t g c c c a c c a g c c t t g t c c t a a t a a a a t t a a g t t g c a t c c g g g a c c t t c a a c g g t g a g g t c a c g g g t g g t c g g a a c a g g a t t a t t t t a a t t c a a c g t a g

3540 hGH poly(A) signal a t t t t g t c t g a c t a g g t g t c c t t c t a t a a t a t t a t g g g g t g g a g g g g g g t g g t a t g g a g c t a a a a c a g a c t g a t c c a c a g g a a g a t a t t a t a a t a c c c c a c c t c c c c c c a c c a t a c c t c g

3600 hGH poly(A) signal A G A T A A C C C T T G G T T C G A C C hGH-PA-R a a g g g g c a a g t t g g g a a g a c a a c c t g t a g g g c c t g c g g g g t c t a t t g g g a a c c a a g c t g g t t c c c c g t t c a a c c c t t c t g t t g g a c a t c c c g g a c g c c c c a g a t a a c c c t t g g t t c g a c c

3660 hGH poly(A) signal a g t g c a g t g g c a c a a t c t t g g c t c a c t g c a a t c t c c g c c t c c t g g g t t c a a g c g a t t c t c t c a c g t c a c c g t g t t a g a a c c g a g t g a c g t t a g a g g c g g a g g a c c c a a g t t c g c t a a g a g

BlpISphINsiI 3720 hGH poly(A) signal c t g c c t c a g c c t c c c g a g t t g t t g g g a t t c c a g g c a t g c a t g a c c a g g c t c a g c t a a t t t g a c g g a g t c g g a g g g c t c a a c a a c c c t a a g g t c c g t a c g t a c t g g t c c g a g t c g a t t a a a

3780 hGH poly(A) signal t t g t t t t t t t g g t a g a g a c g g g g t t t c a c c a t a t t g g c c a g g c t g g t c t c c a a c t c c t a a a a c a a a a a a a c c a t c t c t g c c c c a a a g t g g t a t a a c c g g t c c g a c c a g a g g t t g a g g a t t

BstXI 3840 hGH poly(A) signal t c t c a g g t g a t c t a c c c a c c t t g g c c t c c c a a a t t g c t g g g a t t a c a g g c g t g a a c c a c t a g a g t c c a c t a g a t g g g t g g a a c c g g a g g g t t t a a c g a c c c t a a t g t c c g c a c t t g g t g a

RsrIIPmlIBstEII 3900 hGH poly(A) signal AAV2 ITR AAV2 ITR g c t c c c t t c c c t g t c c t t c t g a t t t t g t a g g t a a c c a c g t g c g g a c c g a g c g g c c g c a g g c g a g g g a a g g g a c a g g a a g a c t a a a a c a t c c a t t g g t g c a c g c c t g g c t c g c c g g c g t c c

3960 AAV2 ITR AAV2 ITR a a c c c c t a g t g a t g g a g t t g g c c a c t c c c t c t c t g c g c g c t c g c t c g c t c a c t g a g g c c g t t g g g g a t c a c t a c c t c a a c c g g t g a g g g a g a g a c g c g c g a g c g a g c g a g t g a c t c c g g c

4020 AAV2 ITR AAV2 ITR g g c g a c c a a a g g t c g c c c g a c g c c c g g g c t t t g c c c g g g c g g c c t c a g t g a g c g a g c g a g c c g c t g g t t t c c a g c g g g c t g c g g g c c c g a a a c g g g c c c g c c g g a g t c a c t c g c t c g c t c

4080 AAV2 ITR AAV2 ITR c g c g c a g c t g c c t g c a g g g g c g c c t g a t g c g g t a t t t t c t c c t t a c g c a t c t g t g c g g t a g c g c g t c g a c g g a c g t c c c c g c g g a c t a c g c c a t a a a a g a g g a a t g c g t a g a c a c g c c a t

4140 f1 ori t t t c a c a c c g c a t a c g t c a a a g c a a c c a t a g t a c g c g c c c t g t a g c g g c g c a t t a a g c g c a a a g t g t g g c g t a t g c a g t t t c g t t g g t a t c a t g c g c g g g a c a t c g c c g c g t a a t t c g c g

4200 f1 ori G F1ori-R g g c g g g t g t g g t g g t t a c g c g c a g c g t g a c c g c t a c a c t t g c c a g c g c c c t a g c g c c c g c c c g c c c a c a c c a c c a a t g c g c g t c g c a c t g g c g a t g t g a a c g g t c g c g g g a t c g c g g g c g

4260 f1 ori A G G A A A G C G A A A G A A G G G A F1ori-R t c c t t t c g c t t t c t t c c c t t c c t t t c t c g c c a c g t t c g c c g g c t t t c c c c g t c a a g c t c t a g g a a a g c g a a a g a a g g g a a g g a a a g a g c g g t g c a a g c g g c c g a a a g g g g c a g t t c g a g a

4320 f1 ori a a a t c g g g g g c t c c c t t t a g g g t t c c g a t t t a g t g c t t t a c g g c a c c t c g a c c c c a a a a a t t t a g c c c c c g a g g g a a a t c c c a a g g c t a a a t c a c g a a a t g c c g t g g a g c t g g g g t t t t t

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

4440 f1 ori G T G G A C T C T T G T T C C A A A C T G G F1ori-F t t t g a c g t t g g a g t c c a c g t t c t t t a a t a g t g g a c t c t t g t t c c a a a c t g g a a c a a c a c t a a a c t g c a a c c t c a g g t g c a a g a a a t t a t c a c c t g a g a a c a a g g t t t g a c c t t g t t g t g a

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

4560 f1 ori g t t a a a a a a t g a g c t g a t t t a a c a a a a a t t t a a c g c g a a t t t t a a c a a a a t a t t a a c g t t c a a t t t t t t a c t c g a c t a a a t t g t t t t t a a a t t g c g c t t a a a a t t g t t t t a t a a t t g c a a

4620 f1 ori A T G T T A G A C G A G A C T A C G G C pRS-marker t a c a a t t t t a t g g t g c a c t c t c a g t a c a a t c t g c t c t g a t g c c g c a t a g t t a a g c c a g c c a t g t t a a a a t a c c a c g t g a g a g t c a t g t t a g a c g a g a c t a c g g c g t a t c a a t t c g g t c g g

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

4740 C C G G G A G C T G C A T G T G T C A G A G G pGEX 3' t t a c a g a c a a g c t g t g a c c g t c t c c g g g a g c t g c a t g t g t c a g a g g t t t t c a c c g t c a t c a a t g t c t g t t c g a c a c t g g c a g a g g c c c t c g a c g t a c a c a g t c t c c a a a a g t g g c a g t a g

4800 C G G A G C A C T A T G C G G A T A A pBRforEco a c c g a a a c g c g c g a g a c g a a a g g g c c t c g t g a t a c g c c t a t t t t t a t a g g t t a a t g t c a t t g g c t t t g c g c g c t c t g c t t t c c c g g a g c a c t a t g c g g a t a a a a a t a t c c a a t t a c a g t a

4860 AmpR promoter g a t a a t a a t g g t t t c t t a g a c g t c a g g t g g c a c t t t t c g g g g a a a t g t g c g c g g a a c c c c c t a t t a t t a c c a a a g a a t c t g c a g t c c a c c g t g a a a a g c c c c t t t a c a c g c g c c t t g g g g

4920 AmpR promoter 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 c c t 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 g g a c

4980 1 5 signal sequence MSIQHFRVA AmpR promoter AmpR MSIQHFRVA a t a a a t g c t t c a a t a a t a t t g a a a a a g g a a g a g t a t g a g t a t t c a a c a t t t c c g t g t c g c t a t t t a c g a a g t t a t t a t a a c t t t t t c c t t c t c a t a c t c a t a a g t t g t a a a g g c a c a g c g

5040 10 15 20 signal sequence LIPFFAAFCLPVFA 25 HPETLV AmpR LIPFFAAFCLPVFAHPETLV c c t t a t t c c c t t t t t t g c g g c a t t t t g c c t t c c t g t t t t t g c t c a c c c a g a a a c g c t g g t g g a a t a a g g g a a a a a a c g c c g t a a a a c g g a a g g a c a a a a a c g a g t g g g t c t t t g c g a c c a

5100 30 35 40 45 KVKDAEDQLGARVGYIELDL AmpR KVKDAEDQLGARVGYIELDL g a a a g t a a a a g a t g c t g a a g a t c a g t t g g g t g c a c g a g t g g g t t a c a t c g a a c t g g a t c t c t t t c a t t t t c t a c g a c t t c t a g t c a a c c c a c g t g c t c a c c c a a t g t a g c t t g a c c t a g a

5160 50 55 60 65 NSGKILESFRPEERFPMMST AmpR NSGKILESFRPEERFPMMST c a a c a g c g g t a a g a t c c t t g a g a g t t t t c g c c c c g a a g a a c g t t t t c c a a t g a t g a g c a c g t t g t c g c c a t t c t a g g a a c t c t c a a a a g c g g g g c t t c t t g c a a a a g g t t a c t a c t c g t g

5220 70 75 80 85 FKVLLCGAVLSRIDAGQEQL AmpR C G A T A C A C C G C G C C A T A A T A Amp-R FKVLLCGAVLSRIDAGQEQL t t t t a a a g t t c t g c t a t g t g g c g c g g t a t t a t c c c g t a t t g a c g c c g g g c a a g a g c a a c t a a a a t t t c a a g a c g a t a c a c c g c g c c a t a a t a g g g c a t a a c t g c g g c c c g t t c t c g t t g a

ScaI 5280 90 95 100 105 GRRIHYSQNDLVEYSPVTEK AmpR GRRIHYSQNDLVEYSPVTEK c g g t c g c c g c a t a c a c t a t t c t c a g a a t g a c t t g g t t g a g t a c t c a c c a g t c a c a g a a a a g c c a g c g g c g t a t g t g a t a a g a g t c t t a c t g a a c c a a c t c a t g a g t g g t c a g t g t c t t t t

5340 110 115 120 125 HLTDGMTVRELCSAAITMSD AmpR HLTDGMTVRELCSAAITMSD g c a t c t t a c g g a t g g c a t g a c a g t a a g a g a a t t a t g c a g t g c t g c c a t a a c c a t g a g t g a c g t a g a a t g c c t a c c g t a c t g t c a t t c t c t t a a t a c g t c a c g a c g g t a t t g g t a c t c a c t

PvuI 5400 130 135 140 145 NTAANLLLTTIGGPKELTAF AmpR NTAANLLLTTIGGPKELTAF t a a c a c t g c g g c c a a c t t a c t t c t g a c a a c g a t c g g a g g a c c g a a g g a g c t a a c c g c t t t a t t g t g a c g c c g g t t g a a t g a a g a c t g t t g c t a g c c t c c t g g c t t c c t c g a t t g g c g a a a

5460 150 155 160 165 LHNMGDHVTRLDRWEPELNE AmpR LHNMGDHVTRLDRWEPELNE t t t g c a c a a c a t g g g g g a t c a t g t a a c t c g c c t t g a t c g t t g g g a a c c g g a g c t g a a t g a a a a c g t g t t g t a c c c c c t a g t a c a t t g a g c g g a a c t a g c a a c c c t t g g c c t c g a c t t a c t

FspI 5520 170 175 180 185 AIPNDERDTTMPVAMATTLR AmpR AIPNDERDTTMPVAMATTLR a g c c a t a c c a a a c g a c g a g c g t g a c a c c a c g a t g c c t g t a g c a a t g g c a a c a a c g t t g c g t c g g t a t g g t t t g c t g c t c g c a c t g t g g t g c t a c g g a c a t c g t t a c c g t t g t t g c a a c g c

AseI 5580 190 195 200 205 KLLTGELLTLASRQQLIDWM AmpR KLLTGELLTLASRQQLIDWM c a a a c t a t t a a c t g g c g a a c t a c t t a c t c t a g c t t c c c g g c a a c a a t t a a t a g a c t g g a t g t t t g a t a a t t g a c c g c t t g a t g a a t g a g a t c g a a g g g c c g t t g t t a a t t a t c t g a c c t a

5640 210 215 220 225 EADKVAGPLLRSALPAGWFI AmpR EADKVAGPLLRSALPAGWFI g g a g g c g g a t a a a g t t g c a g g a c c a c t t c t g c g c t c g g c c c t t c c g g c t g g c t g g t t t a t c c t c c g c c t a t t t c a a c g t c c t g g t g a a g a c g c g a g c c g g g a a g g c c g a c c g a c c a a a t a

5700 230 235 240 245 ADKSGAGERGSRGIIAALGP AmpR ADKSGAGERGSRGIIAALGP t g c t g a t a a a t c t g g a g c c g g t g a g c g t g g g t c t c g c g g t a t c a t t g c a g c a c t g g g g c c a c g a c t a t t t a g a c c t c g g c c a c t c g c a c c c a g a g c g c c a t a g t a a c g t c g t g a c c c c g g

5760 250 255 260 265 DGKPSRIVVIYTTGSQATMD AmpR DGKPSRIVVIYTTGSQATMD a g a t g g t a a g c c c t c c c g t a t c g t a g t t a t c t a c a c g a c g g g g a g t c a g g c a a c t a t g g a t c t a c c a t t c g g g a g g g c a t a g c a t c a a t a g a t g t g c t g c c c c t c a g t c c g t t g a t a c c t

5820 270 275 280 285 ERNRQIAEIGASLIKHW* AmpR ERNRQIAEIGASLIKHW* t g a a c g a a a t a g a c a g a t c g c t g a g a t a g g t g c c t c a c t g a t t a a g c a t t g g t a a c t g t c a c t t g c t t t a t c t g t c t a g c g a c t c t a t c c a c g g a g t g a c t a a t t c g t a a c c a t t g a c a g

5880 a g a c c a a g t t t a c t c a t a t a t a c t t t a g a t t g a t t t a a a a c t t c a t t t t t a a t t t a a a a g t c t g g t t c a a a t g a g t a t a t a t g a a a t c t a a c t a a a t t t t g a a g t a a a a a t t a a a t t t t c

5940 g a t c t a g g t g a a g a t c c t t t t t g a t a a t c t c a t g a c c a a a a t c c c t t a a c g t g a g t t t t c c t a g a t c c a c t t c t a g g a a a a a c t a t t a g a g t a c t g g t t t t a g g g a a t t g c a c t c a a a a g

6000 ori g t t c c a c t g a g c g t c a g a c c c c g t a g a a a a g a t c a a a g g a t c t t c t t g a g a t c c t t t t t t c a a g g t g a c t c g c a g t c t g g g g c a t c t t t t c t a g t t t c c t a g a a g a a c t c t a g g a a a a a a

6060 ori t c t g c g c g t a a t c t g c t g c t t g c a a a c a a a a a a a c c a c c g c t a c c a g c g g t g g t t t g t t t a g a c g c g c a t t a g a c g a c g a a c g t t t g t t t t t t t g g t g g c g a t g g t c g c c a c c a a a c a a a

6120 ori g c c g g a t c a a g a g c t a c c a a c t c t t t t t c c g a a g g t a a c t g g c t t c a g c a g a g c g c a g a t c g g c c t a g t t c t c g a t g g t t g a g a a a a a g g c t t c c a t t g a c c g a a g t c g t c t c g c g t c t a

6180 ori 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 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 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 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

AlwNI 6240 ori a c c g c c t a c a t a c c t c g c t c t g c t a a t c c t g t t a c c a g t g g c t g c t g c c a g t g g c g a t a a t g g c g g a t g t a t g g a g c g a g a c g a t t a g g a c a a t g g t c a c c g a c g a c g g t c a c c g c t a t t

6300 ori g t c g t g t c t t a c c g g g t t g g a c t c a a g a c g a t a g t t a c c g g a t a a g g c g c a g c g g t c g g g c a g c a c a g a a t g g c c c a a c c t g a g t t c t g c t a t c a a t g g c c t a t t c c g c g t c g c c a g c c c

6360 ori c t g a a c g g g g g g t t c g t g c a c a c a g c c c a g c t t g g a g c g a a c g a c c t a c a c c g a a c t g a g g a c t t g c c c c c c a a g c a c g t g t g t c g g g t c g a a c c t c g c t t g c t g g a t g t g g c t t g a c t c

6420 ori a t a c c t a c a g c g t g a g c t a t g a g a a a g c g c c a c g c t t c c c g a a g g g a g a a a g g c g g a c a g t a t g g a t g t c g c a c t c g a t a c t c t t t c g c g g t g c g a a g g g c t t c c c t c t t t c c g c c t g t c

6480 ori G G G A A A pBR322ori-F g t a t c c g g t a a g c g g c a g g g t c g g a a c a g g a g a g c g c a c g a g g g a g c t t c c a g g g g g a a a c a t a g g c c a t t c g c c g t c c c a g c c t t g t c c t c t c g c g t g c t c c c t c g a a g g t c c c c c t t t

6540 ori C G C C T G G T A T C T T T pBR322ori-F c g c c t g g t a t c t t t a t a g t c c t g t c g g g t t t c g c c a c c t c t g a c t t g a g c g t c g a t t t t t g c g g a c c a t a g a a a t a t c a g g a c a g c c c a a a g c g g t g g a g a c t g a a c t c g c a g c t a a a a a

6600 ori g t g a t g c t c g t c a g g g g g g c g g a g c c t a t g g a a a a a c g c c a g c a a c g c g g c c t t t t t a c g c a c t a c g a g c a g t c c c c c c g c c t c g g a t a c c t t t t t g c g g t c g t t g c g c c g g a a a a a t g c

6635 *MD g t t c c t g g c c t t t t g c t g g c c t t t t g c t c a c a t g t c a a g g a c c g g a a a a c g a c c g g a a a a c g a g t g t a c a

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.