Addgene pCB578 - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pCB578


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4000 3000 2000 1000 End (4650) SacI - BsiHKAI (4503) Eco53kI (4501) HincII (4487) BsiEI (4170) BmrI (3927) MflI * - BstYI - BamHI (3921) EciI (3866) BpmI (3770) AclI (3149) MluI (3115) PciI (3005) NruI (2874) PmlI (2836) PvuII (2628) KpnI (2321) Acc65I (2317) BsmI (2147) ScaI (2063) BtgI - NcoI (1966) EcoRI (1883) BstBI (1881) SphI (1804) AleI (1790) BmtI (1646) NheI (1642) BfuAI - BspMI (1612) BstAPI (1324) BlpI (1223) BsgI (1166) SwaI (1064) BmgBI (763) BstZ17I (758) Esp3I - BsmBI (736) AfeI (120) Start (0) tracrRNA Cas9 Cas9 pCB578 4650 bp

Sequence View

Start (0) 5ʹ 3ʹ 60 t t a c g a a a t c a t c c t g t g g a g c t t a g t a g g t t t a g c a a g a t g g c a g c g c c t a a a t g t a g a a a t g c t t t a g t a g g a c a c c t c g a a t c a t c c a a a t c g t t c t a c c g t c g c g g a t t t a c a t c t

AfeI 120 a t g a t a a a a g g a t t a a g a g a t t a a t t t c c c t a a a a a t g a t a a a a c a a g c g t t t t g a a a g c t a c t a t t t t c c t a a t t c t c t a a t t a a a g g g a t t t t t a c t a t t t t g t t c g c a a a a c t t t c g

180 tracrRNA g c t t g t t t t t t t g g t t t g c a g t c a g a g t a g a a t a g a a g t a t c a a a a a a a g c a c c g a c t c g c g a a c a a a a a a a c c a a a c g t c a g t c t c a t c t t a t c t t c a t a g t t t t t t t c g t g g c t g a g c

240 tracrRNA g t g c c a c t t t t t c a a g t t g a t a a c g g a c t a g c c t t a t t t t a a c t t g c t a t g c t g t t t t g a c a c g g t g a a a a a g t t c a a c t a t t g c c t g a t c g g a a t a a a a t t g a a c g a t a c g a c a a a a c t

300 tracrRNA a t g g t t c c a a c a a g a t t a t t t t a t a a c t t t t a t a a c a a a t a a t c a a g g a g a a a t t c a a a g t a c c a a g g t t g t t c t a a t a a a a t a t t g a a a a t a t t g t t t a t t a g t t c c t c t t t a a g t t t c

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

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

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

540 t a t t a t t g a a a t c a t c a a a c t c a t t a t g g a t t t a a t t t a a a c t t t t t a t t t t a g g a g g c a a t a a t a a c t t t a g t a g t t t g a g t a a t a c c t a a a t t a a a t t t g a a a a a t a a a a t c c t c c g t

600 1 5 10 15 MDKKYSIGLDIGTNSVGWA Cas9 1 5 10 15 MDKKYSIGLDIGTNSVGWA Cas9 MDKKYSIGLDIGTNSVGWA a a a a t g g a t a a g a a a t a c t c a a t a g g c t t a g a t a t c g g c a c a a a t a g c g t c g g a t g g g c g t t t t a c c t a t t c t t t a t g a g t t a t c c g a a t c t a t a g c c g t g t t t a t c g c a g c c t a c c c g c

660 20 25 30 35 VITDEYKVPSKKFKVLGNTD Cas9 20 25 30 35 VITDEYKVPSKKFKVLGNTD Cas9 VITDEYKVPSKKFKVLGNTD g t g a t c a c t g a t g a a t a t a a g g t t c c g t c t a a a a a g t t c a a g g t t c t g g g a a a t a c a g a c c a c t a g t g a c t a c t t a t a t t c c a a g g c a g a t t t t t c a a g t t c c a a g a c c c t t t a t g t c t g

720 40 45 50 55 RHSIKKNLIGALLFDSGETA Cas9 40 45 50 55 RHSIKKNLIGALLFDSGETA Cas9 RHSIKKNLIGALLFDSGETA c g c c a c a g t a t c a a a a a a a a t c t t a t a g g g g c t c t t t t a t t t g a c a g t g g a g a g a c a g c g g c g g t g t c a t a g t t t t t t t t a g a a t a t c c c c g a g a a a a t a a a c t g t c a c c t c t c t g t c g c

BstZ17IBmgBIBsmBIEsp3I 780 60 65 70 75 EATRLKRTARRRYTRRKNRI Cas9 60 65 70 75 EATRLKRTARRRYTRRKNRI Cas9 EATRLKRTARRRYTRRKNRI g a a g c g a c t c g t c t c a a a c g g a c a g c t c g t a g a a g g t a t a c a c g t c g g a a g a a t c g t a t t c t t c g c t g a g c a g a g t t t g c c t g t c g a g c a t c t t c c a t a t g t g c a g c c t t c t t a g c a t a a

840 80 85 90 95 CYLQEIFSNEMAKVDDSFFH Cas9 80 85 90 95 CYLQEIFSNEMAKVDDSFFH Cas9 CYLQEIFSNEMAKVDDSFFH t g t t a t c t a c a g g a g a t t t t t t c a a a t g a g a t g g c g a a a g t a g a t g a t a g t t t c t t t c a t a c a a t a g a t g t c c t c t a a a a a a g t t t a c t c t a c c g c t t t c a t c t a c t a t c a a a g a a a g t a

900 100 105 110 115 RLEESFLVEEDKKHERHPIF Cas9 100 105 110 115 RLEESFLVEEDKKHERHPIF Cas9 RLEESFLVEEDKKHERHPIF c g a c t t g a a g a g t c t t t t t t g g t g g a a g a a g a c a a g a a g c a t g a a c g t c a t c c t a t t t t t g c t g a a c t t c t c a g a a a a a a c c a c c t t c t t c t g t t c t t c g t a c t t g c a g t a g g a t a a a a a

960 120 125 130 135 GNIVDEVAYHEKYPTIYHLR Cas9 120 125 130 135 GNIVDEVAYHEKYPTIYHLR Cas9 GNIVDEVAYHEKYPTIYHLR g g a a a t a t a g t a g a t g a a g t t g c t t a t c a t g a g a a a t a t c c a a c t a t c t a t c a t c t g c g a c c t t t a t a t c a t c t a c t t c a a c g a a t a g t a c t c t t t a t a g g t t g a t a g a t a g t a g a c g c t

1020 140 145 150 155 KKLVDSTDKADLRLIYLALA Cas9 140 145 150 155 KKLVDSTDKADLRLIYLALA Cas9 KKLVDSTDKADLRLIYLALA a a a a a a t t g g t a g a t t c t a c t g a t a a a g c g g a t t t g c g c t t a a t c t a t t t g g c c t t a g c g t t t t t t a a c c a t c t a a g a t g a c t a t t t c g c c t a a a c g c g a a t t a g a t a a a c c g g a a t c g c

SwaI 1080 160 165 170 175 HMIKFRGHFLIEGDLNPDNS Cas9 160 165 170 175 HMIKFRGHFLIEGDLNPDNS Cas9 HMIKFRGHFLIEGDLNPDNS c a t a t g a t t a a g t t t c g t g g t c a t t t t t t g a t t g a g g g a g a t t t a a a t c c t g a t a a t a g t g t a t a c t a a t t c a a a g c a c c a g t a a a a a a c t a a c t c c c t c t a a a t t t a g g a c t a t t a t c a

1140 180 185 190 195 DVDKLFIQLVQTYNQLFEEN Cas9 180 185 190 195 DVDKLFIQLVQTYNQLFEEN Cas9 DVDKLFIQLVQTYNQLFEEN g a t g t g g a c a a a c t a t t t a t c c a g t t g g t a c a a a c c t a c a a t c a a t t a t t t g a a g a a a a c c t a c a c c t g t t t g a t a a a t a g g t c a a c c a t g t t t g g a t g t t a g t t a a t a a a c t t c t t t t g

BsgI 1200 200 205 210 215 PINASGVDAKAILSARLSKS Cas9 200 205 210 215 PINASGVDAKAILSARLSKS Cas9 PINASGVDAKAILSARLSKS c c t a t t a a c g c a a g t g g a g t a g a t g c t a a a g c g a t t c t t t c t g c a c g a t t g a g t a a a t c a g g a t a a t t g c g t t c a c c t c a t c t a c g a t t t c g c t a a g a a a g a c g t g c t a a c t c a t t t a g t

BlpI 1260 220 225 230 235 RRLENLIAQLPGEKKNGLFG Cas9 220 225 230 235 RRLENLIAQLPGEKKNGLFG Cas9 RRLENLIAQLPGEKKNGLFG a g a c g a t t a g a a a a t c t c a t t g c t c a g c t c c c c g g t g a g a a g a a a a a t g g c t t a t t t g g g t c t g c t a a t c t t t t a g a g t a a c g a g t c g a g g g g c c a c t c t t c t t t t t a c c g a a t a a a c c c

1320 240 245 250 255 NLIALSLGLTPNFKSNFDLA Cas9 240 245 250 255 NLIALSLGLTPNFKSNFDLA Cas9 NLIALSLGLTPNFKSNFDLA a a t c t c a t t g c t t t g t c a t t g g g t t t g a c c c c t a a t t t t a a a t c a a a t t t t g a t t t g g c a t t a g a g t a a c g a a a c a g t a a c c c a a a c t g g g g a t t a a a a t t t a g t t t a a a a c t a a a c c g t

BstAPI 1380 260 265 270 275 EDAKLQLSKDTYDDDLDNLL Cas9 260 265 270 275 EDAKLQLSKDTYDDDLDNLL Cas9 EDAKLQLSKDTYDDDLDNLL g a a g a t g c t a a a t t a c a g c t t t c a a a a g a t a c t t a c g a t g a t g a t t t a g a t a a t t t a t t g c t t c t a c g a t t t a a t g t c g a a a g t t t t c t a t g a a t g c t a c t a c t a a a t c t a t t a a a t a a c

1440 280 285 290 295 AQIGDQYADLFLAAKNLSDA Cas9 280 285 290 295 AQIGDQYADLFLAAKNLSDA Cas9 AQIGDQYADLFLAAKNLSDA g c g c a a a t t g g a g a t c a a t a t g c t g a t t t g t t t t t g g c a g c t a a g a a t t t a t c a g a t g c t c g c g t t t a a c c t c t a g t t a t a c g a c t a a a c a a a a a c c g t c g a t t c t t a a a t a g t c t a c g a

1500 300 305 310 315 ILLSDILRVNTEITKAPLSA Cas9 300 305 310 315 ILLSDILRVNTEITKAPLSA Cas9 ILLSDILRVNTEITKAPLSA a t t t t a c t t t c a g a t a t c c t a a g a g t a a a t a c t g a a a t a a c t a a g g c t c c c c t a t c a g c t t a a a a t g a a a g t c t a t a g g a t t c t c a t t t a t g a c t t t a t t g a t t c c g a g g g g a t a g t c g a

1560 320 325 330 335 SMIKRYDEHHQDLTLLKALV Cas9 320 325 330 335 SMIKRYDEHHQDLTLLKALV Cas9 SMIKRYDEHHQDLTLLKALV t c a a t g a t t a a a c g c t a c g a t g a a c a t c a t c a a g a c t t g a c t c t t t t a a a a g c t t t a g t t a g t t a c t a a t t t g c g a t g c t a c t t g t a g t a g t t c t g a a c t g a g a a a a t t t t c g a a a t c a a

BspMIBfuAI 1620 340 345 350 355 RQQLPEKYKEIFFDQSKNGY Cas9 340 345 350 355 RQQLPEKYKEIFFDQSKNGY Cas9 RQQLPEKYKEIFFDQSKNGY c g a c a a c a a c t t c c a g a a a a g t a t a a a g a a a t c t t t t t t g a t c a a t c a a a a a a c g g a t a t g c t g t t g t t g a a g g t c t t t t c a t a t t t c t t t a g a a a a a a c t a g t t a g t t t t t t g c c t a t a

BmtINheI 1680 360 365 370 375 AGYIDGGASQEEFYKFIKPI Cas9 360 365 370 375 AGYIDGGASQEEFYKFIKPI Cas9 AGYIDGGASQEEFYKFIKPI g c a g g t t a t a t t g a t g g g g g a g c t a g c c a a g a a g a a t t t t a t a a a t t t a t c a a a c c a a t t c g t c c a a t a t a a c t a c c c c c t c g a t c g g t t c t t c t t a a a a t a t t t a a a t a g t t t g g t t a a

1740 380 385 390 395 LEKMDGTEELLVKLNREDLL Cas9 380 385 390 395 LEKMDGTEELLVKLNREDLL Cas9 LEKMDGTEELLVKLNREDLL t t a g a a a a a a t g g a t g g t a c t g a g g a a t t a t t g g t g a a a c t a a a t c g t g a a g a t t t g c t g a a t c t t t t t t a c c t a c c a t g a c t c c t t a a t a a c c a c t t t g a t t t a g c a c t t c t a a a c g a c

AleI 1800 400 405 410 415 RKQRTFDNGSIPHQIHLGEL Cas9 400 405 410 415 RKQRTFDNGSIPHQIHLGEL Cas9 RKQRTFDNGSIPHQIHLGEL c g c a a g c a a c g g a c c t t t g a c a a c g g c t c t a t t c c c c a t c a a a t t c a c t t g g g t g a g c t g g c g t t c g t t g c c t g g a a a c t g t t g c c g a g a t a a g g g g t a g t t t a a g t g a a c c c a c t c g a c

SphI 1860 420 425 430 435 HAILRRQEDFYPFLKDNREK Cas9 420 425 430 435 HAILRRQEDFYPFLKDNREK Cas9 HAILRRQEDFYPFLKDNREK c a t g c t a t t t t g a g a a g a c a a g a a g a c t t t t a t c c a t t t t t a a a a g a c a a t c g t g a g a a g g t a c g a t a a a a c t c t t c t g t t c t t c t g a a a a t a g g t a a a a a t t t t c t g t t a g c a c t c t t c

BstBIEcoRI 1920 440 445 450 455 IEKILTFRIPYYVGPLARGN Cas9 440 445 450 455 IEKILTFRIPYYVGPLARGN Cas9 IEKILTFRIPYYVGPLARGN a t t g a a a a a a t c t t g a c t t t t c g a a t t c c t t a t t a t g t t g g t c c a t t g g c g c g t g g c a a t t a a c t t t t t t a g a a c t g a a a a g c t t a a g g a a t a a t a c a a c c a g g t a a c c g c g c a c c g t t a

NcoIBtgI 1980 460 465 470 475 SRFAWMTRKSEETITPWNFE Cas9 460 465 470 475 SRFAWMTRKSEETITPWNFE Cas9 SRFAWMTRKSEETITPWNFE a g t c g t t t t g c a t g g a t g a c t c g g a a g t c t g a a g a a a c a a t t a c c c c a t g g a a t t t t g a a t c a g c a a a a c g t a c c t a c t g a g c c t t c a g a c t t c t t t g t t a a t g g g g t a c c t t a a a a c t t

2040 480 485 490 495 EVVDKGASAQSFIERMTNFD Cas9 480 485 490 495 EVVDKGASAQSFIERMTNFD Cas9 EVVDKGASAQSFIERMTNFD g a a g t t g t c g a t a a a g g t g c t t c a g c t c a a t c a t t t a t t g a a c g c a t g a c a a a c t t t g a t c t t c a a c a g c t a t t t c c a c g a a g t c g a g t t a g t a a a t a a c t t g c g t a c t g t t t g a a a c t a

ScaI 2100 500 505 510 515 KNLPNEKVLPKHSLLYEYFT Cas9 500 505 510 515 KNLPNEKVLPKHSLLYEYFT Cas9 KNLPNEKVLPKHSLLYEYFT a a a a a t c t t c c a a a t g a a a a a g t a c t a c c a a a a c a t a g t t t g c t t t a t g a g t a t t t t a c g t t t t t a g a a g g t t t a c t t t t t c a t g a t g g t t t t g t a t c a a a c g a a a t a c t c a t a a a a t g c

BsmI 2160 520 525 530 535 VYNELTKVKYVTEGMRKPAF Cas9 520 525 530 535 VYNELTKVKYVTEGMRKPAF Cas9 VYNELTKVKYVTEGMRKPAF g t t t a t a a c g a a t t g a c a a a g g t c a a a t a t g t t a c t g a a g g a a t g c g a a a a c c a g c a t t t c a a a t a t t g c t t a a c t g t t t c c a g t t t a t a c a a t g a c t t c c t t a c g c t t t t g g t c g t a a a

2220 540 545 550 555 LSGEQKKAIVDLLFKTNRKV Cas9 540 545 550 555 LSGEQKKAIVDLLFKTNRKV Cas9 LSGEQKKAIVDLLFKTNRKV c t t t c a g g t g a a c a g a a g a a a g c c a t t g t t g a t t t a c t c t t c a a a a c a a a t c g a a a a g t a g a a a g t c c a c t t g t c t t c t t t c g g t a a c a a c t a a a t g a g a a g t t t t g t t t a g c t t t t c a t

2280 560 565 570 575 TVKQLKEDYFKKIECFDSVE Cas9 560 565 570 575 TVKQLKEDYFKKIECFDSVE Cas9 TVKQLKEDYFKKIECFDSVE a c c g t t a a g c a a t t a a a a g a a g a t t a t t t c a a a a a a a t a g a a t g t t t t g a t a g t g t t g a a t g g c a a t t c g t t a a t t t t c t t c t a a t a a a g t t t t t t t a t c t t a c a a a a c t a t c a c a a c t t

Acc65IKpnI 2340 580 585 590 595 ISGVEDRFNASLGTYHDLLK Cas9 580 585 590 595 ISGVEDRFNASLGTYHDLLK Cas9 ISGVEDRFNASLGTYHDLLK a t t t c a g g a g t t g a a g a t a g a t t t a a t g c t t c a t t a g g t a c c t a c c a t g a t t t g c t a a a a t a a a g t c c t c a a c t t c t a t c t a a a t t a c g a a g t a a t c c a t g g a t g g t a c t a a a c g a t t t t

2400 600 605 610 615 IIKDKDFLDNEENEDILEDI Cas9 600 605 610 615 IIKDKDFLDNEENEDILEDI Cas9 IIKDKDFLDNEENEDILEDI a t t a t t a a a g a t a a a g a t t t t t t g g a t a a t g a a g a a a a t g a a g a t a t c t t a g a g g a t a t t t a a t a a t t t c t a t t t c t a a a a a a c c t a t t a c t t c t t t t a c t t c t a t a g a a t c t c c t a t a a

2460 620 625 630 635 VLTLTLFEDREMIEERLKTY Cas9 620 625 630 635 VLTLTLFEDREMIEERLKTY Cas9 VLTLTLFEDREMIEERLKTY g t t t t a a c a t t g a c c t t a t t t g a a g a t a g g g a g a t g a t t g a g g a a a g a c t t a a a a c a t a t c a a a a t t g t a a c t g g a a t a a a c t t c t a t c c c t c t a c t a a c t c c t t t c t g a a t t t t g t a t a

2520 640 645 650 655 AHLFDDKVMKQLKRRRYTGW Cas9 640 645 650 655 AHLFDDKVMKQLKRRRYTGW Cas9 AHLFDDKVMKQLKRRRYTGW g c t c a c c t c t t t g a t g a t a a g g t g a t g a a a c a g c t t a a a c g t c g c c g t t a t a c t g g t t g g c g a g t g g a g a a a c t a c t a t t c c a c t a c t t t g t c g a a t t t g c a g c g g c a a t a t g a c c a a c c

2580 660 665 670 675 GRLSRKLINGIRDKQSGKTI Cas9 660 665 670 675 GRLSRKLINGIRDKQSGKTI Cas9 GRLSRKLINGIRDKQSGKTI g g a c g t t t g t c t c g a a a a t t g a t t a a t g g t a t t a g g g a t a a g c a a t c t g g c a a a a c a a t a c c t g c a a a c a g a g c t t t t a a c t a a t t a c c a t a a t c c c t a t t c g t t a g a c c g t t t t g t t a t

PvuII 2640 680 685 690 695 LDFLKSDGFANRNFMQLIHD Cas9 680 685 690 695 LDFLKSDGFANRNFMQLIHD Cas9 LDFLKSDGFANRNFMQLIHD t t a g a t t t t t t g a a a t c a g a t g g t t t t g c c a a t c g c a a t t t t a t g c a g c t g a t c c a t g a t a a t c t a a a a a a c t t t a g t c t a c c a a a a c g g t t a g c g t t a a a a t a c g t c g a c t a g g t a c t a

2700 700 705 710 715 DSLTFKEDIQKAQVSGQGDS Cas9 700 705 710 715 DSLTFKEDIQKAQVSGQGDS Cas9 DSLTFKEDIQKAQVSGQGDS g a t a g t t t g a c a t t t a a a g a a g a c a t t c a a a a a g c a c a a g t g t c t g g a c a a g g c g a t a g t c t a t c a a a c t g t a a a t t t c t t c t g t a a g t t t t t c g t g t t c a c a g a c c t g t t c c g c t a t c a

2760 720 725 730 735 LHEHIANLAGSPAIKKGILQ Cas9 720 725 730 735 LHEHIANLAGSPAIKKGILQ Cas9 LHEHIANLAGSPAIKKGILQ t t a c a t g a a c a t a t t g c a a a t t t a g c t g g t a g c c c t g c t a t t a a a a a a g g t a t t t t a c a g a a t g t a c t t g t a t a a c g t t t a a a t c g a c c a t c g g g a c g a t a a t t t t t t c c a t a a a a t g t c

2820 740 745 750 755 TVKVVDELVKVMGRHKPENI Cas9 740 745 750 755 TVKVVDELVKVMGRHKPENI Cas9 TVKVVDELVKVMGRHKPENI a c t g t a a a a g t t g t t g a t g a a t t g g t c a a a g t a a t g g g g c g g c a t a a g c c a g a a a a t a t c t g a c a t t t t c a a c a a c t a c t t a a c c a g t t t c a t t a c c c c g c c g t a t t c g g t c t t t t a t a g

NruIPmlI 2880 760 765 770 775 VIEMARENQTTQKGQKNSRE Cas9 760 765 770 775 VIEMARENQTTQKGQKNSRE Cas9 VIEMARENQTTQKGQKNSRE g t t a t t g a a a t g g c a c g t g a a a a t c a g a c a a c t c a a a a g g g c c a g a a a a a t t c g c g a g a g c a a t a a c t t t a c c g t g c a c t t t t a g t c t g t t g a g t t t t c c c g g t c t t t t t a a g c g c t c t c

2940 780 785 790 795 RMKRIEEGIKELGSQILKEH Cas9 780 785 790 795 RMKRIEEGIKELGSQILKEH Cas9 RMKRIEEGIKELGSQILKEH c g t a t g a a a c g a a t c g a a g a a g g t a t c a a a g a a t t a g g a a g t c a g a t t c t t a a a g a g c a t g c a t a c t t t g c t t a g c t t c t t c c a t a g t t t c t t a a t c c t t c a g t c t a a g a a t t t c t c g t a

3000 800 805 810 815 PVENTQLQNEKLYLYYLQNG Cas9 800 805 810 815 PVENTQLQNEKLYLYYLQNG Cas9 PVENTQLQNEKLYLYYLQNG c c t g t t g a a a a t a c t c a a t t g c a a a a t g a a a a g c t c t a t c t c t a t t a t c t c c a a a a t g g a g g a c a a c t t t t a t g a g t t a a c g t t t t a c t t t t c g a g a t a g a g a t a a t a g a g g t t t t a c c t

PciI 3060 820 825 830 835 RDMYVDQELDINRLSDYDVD Cas9 820 825 830 835 RDMYVDQELDINRLSDYDVD Cas9 RDMYVDQELDINRLSDYDVD a g a g a c a t g t a t g t g g a c c a a g a a t t a g a t a t t a a t c g t t t a a g t g a t t a t g a t g t c g a t t c t c t g t a c a t a c a c c t g g t t c t t a a t c t a t a a t t a g c a a a t t c a c t a a t a c t a c a g c t a

MluI 3120 840 845 850 855 HIVPQSFLKDDSIDNKVLTR Cas9 840 845 850 855 HIVPQSFLKDDSIDNKVLTR Cas9 HIVPQSFLKDDSIDNKVLTR c a c a t t g t t c c a c a a a g t t t c c t t a a a g a c g a t t c a a t a g a c a a t a a g g t c t t a a c g c g t g t g t a a c a a g g t g t t t c a a a g g a a t t t c t g c t a a g t t a t c t g t t a t t c c a g a a t t g c g c a

AclI 3180 860 865 870 875 SDKNRGKSDNVPSEEVVKKM Cas9 860 865 870 875 SDKNRGKSDNVPSEEVVKKM Cas9 SDKNRGKSDNVPSEEVVKKM t c t g a t a a a a a t c g t g g t a a a t c g g a t a a c g t t c c a a g t g a a g a a g t a g t c a a a a a g a t g a g a c t a t t t t t a g c a c c a t t t a g c c t a t t g c a a g g t t c a c t t c t t c a t c a g t t t t t c t a c

3240 880 885 890 895 KNYWRQLLNAKLITQRKFDN Cas9 880 885 890 895 KNYWRQLLNAKLITQRKFDN Cas9 KNYWRQLLNAKLITQRKFDN a a a a a c t a t t g g a g a c a a c t t c t a a a c g c c a a g t t a a t c a c t c a a c g t a a g t t t g a t a a t t t t t t g a t a a c c t c t g t t g a a g a t t t g c g g t t c a a t t a g t g a g t t g c a t t c a a a c t a t t a

3300 900 905 910 915 LTKAERGGLSELDKAGFIKR Cas9 900 905 910 915 LTKAERGGLSELDKAGFIKR Cas9 LTKAERGGLSELDKAGFIKR t t a a c g a a a g c t g a a c g t g g a g g t t t g a g t g a a c t t g a t a a a g c t g g t t t t a t c a a a c g c a a t t g c t t t c g a c t t g c a c c t c c a a a c t c a c t t g a a c t a t t t c g a c c a a a a t a g t t t g c g

3360 920 925 930 935 QLVETRQITKHVAQILDSRM Cas9 920 925 930 935 QLVETRQITKHVAQILDSRM Cas9 QLVETRQITKHVAQILDSRM c a a t t g g t t g a a a c t c g c c a a a t c a c t a a g c a t g t g g c a c a a a t t t t g g a t a g t c g c a t g g t t a a c c a a c t t t g a g c g g t t t a g t g a t t c g t a c a c c g t g t t t a a a a c c t a t c a g c g t a c

3420 940 945 950 955 NTKYDENDKLIREVKVITLK Cas9 940 945 950 955 NTKYDENDKLIREVKVITLK Cas9 NTKYDENDKLIREVKVITLK a a t a c t a a a t a c g a t g a a a a t g a t a a a c t t a t t c g a g a g g t t a a a g t g a t t a c c t t a a a a t t a t g a t t t a t g c t a c t t t t a c t a t t t g a a t a a g c t c t c c a a t t t c a c t a a t g g a a t t t t

3480 960 965 970 975 SKLVSDFRKDFQFYKVREIN Cas9 960 965 970 975 SKLVSDFRKDFQFYKVREIN Cas9 SKLVSDFRKDFQFYKVREIN t c t a a a t t a g t t t c t g a c t t c c g a a a a g a t t t c c a a t t c t a t a a a g t a c g t g a g a t t a a c a g a t t t a a t c a a a g a c t g a a g g c t t t t c t a a a g g t t a a g a t a t t t c a t g c a c t c t a a t t g

3540 980 985 990 995 NYHHAHDAYLNAVVGTALIK Cas9 980 985 990 995 NYHHAHDAYLNAVVGTALIK Cas9 NYHHAHDAYLNAVVGTALIK a a t t a c c a t c a t g c c c a t g a t g c g t a t c t a a a t g c c g t c g t t g g a a c t g c t t t g a t t a a g t t a a t g g t a g t a c g g g t a c t a c g c a t a g a t t t a c g g c a g c a a c c t t g a c g a a a c t a a t t c

3600 1000 1005 1010 1015 KYPKLESEFVYGDYKVYDVR Cas9 1000 1005 1010 1015 KYPKLESEFVYGDYKVYDVR Cas9 KYPKLESEFVYGDYKVYDVR a a a t a t c c a a a a c t t g a a t c g g a g t t t g t c t a t g g t g a t t a t a a a g t t t a t g a t g t t c g t t t t a t a g g t t t t g a a c t t a g c c t c a a a c a g a t a c c a c t a a t a t t t c a a a t a c t a c a a g c a

3660 1020 1025 1030 1035 KMIAKSEQEIGKATAKYFFY Cas9 1020 1025 1030 1035 KMIAKSEQEIGKATAKYFFY Cas9 KMIAKSEQEIGKATAKYFFY a a a a t g a t t g c t a a g t c t g a g c a a g a a a t a g g c a a a g c a a c c g c a a a a t a t t t c t t t t a c t t t t a c t a a c g a t t c a g a c t c g t t c t t t a t c c g t t t c g t t g g c g t t t t a t a a a g a a a a t g

3720 1040 1045 1050 1055 SNIMNFFKTEITLANGEIRK Cas9 1040 1045 1050 1055 SNIMNFFKTEITLANGEIRK Cas9 SNIMNFFKTEITLANGEIRK t c t a a t a t c a t g a a c t t c t t c a a a a c a g a a a t t a c a c t t g c a a a t g g a g a g a t t c g c a a a a g a t t a t a g t a c t t g a a g a a g t t t t g t c t t t a a t g t g a a c g t t t a c c t c t c t a a g c g t t t

BpmI 3780 1060 1065 1070 1075 RPLIETNGETGEIVWDKGRD Cas9 1060 1065 1070 1075 RPLIETNGETGEIVWDKGRD Cas9 RPLIETNGETGEIVWDKGRD c g c c c t c t a a t c g a a a c t a a t g g g g a a a c t g g a g a a a t t g t c t g g g a t a a a g g g c g a g a t g c g g g a g a t t a g c t t t g a t t a c c c c t t t g a c c t c t t t a a c a g a c c c t a t t t c c c g c t c t a

3840 1080 1085 1090 1095 FATVRKVLSMPQVNIVKKTE Cas9 1080 1085 1090 1095 FATVRKVLSMPQVNIVKKTE Cas9 FATVRKVLSMPQVNIVKKTE t t t g c c a c a g t g c g c a a a g t a t t g t c c a t g c c c c a a g t c a a t a t t g t c a a g a a a a c a g a a a a a c g g t g t c a c g c g t t t c a t a a c a g g t a c g g g g t t c a g t t a t a a c a g t t c t t t t g t c t t

EciI 3900 1100 1105 1110 1115 VQTGGFSKESILPKRNSDKL Cas9 1100 1105 1110 1115 VQTGGFSKESILPKRNSDKL Cas9 VQTGGFSKESILPKRNSDKL g t a c a g a c a g g c g g a t t c t c c a a g g a g t c a a t t t t a c c a a a a a g a a a t t c g g a c a a g c t t c a t g t c t g t c c g c c t a a g a g g t t c c t c a g t t a a a a t g g t t t t t c t t t a a g c c t g t t c g a a

BmrIBamHIBstYIMflI* 3960 1120 1125 1130 1135 IARKKDWDPKKYGGFDSPTV Cas9 1120 1125 1130 1135 IARKKDWDPKKYGGFDSPTV Cas9 IARKKDWDPKKYGGFDSPTV a t t g c t c g t a a a a a a g a c t g g g a t c c a a a a a a a t a t g g t g g t t t t g a t a g t c c a a c g g t a t a a c g a g c a t t t t t t c t g a c c c t a g g t t t t t t t a t a c c a c c a a a a c t a t c a g g t t g c c a t

4020 1140 1145 1150 1155 AYSVLVVAKVEKGKSKKLKS Cas9 1140 1145 1150 1155 AYSVLVVAKVEKGKSKKLKS Cas9 AYSVLVVAKVEKGKSKKLKS g c t t a t t c a g t c c t a g t g g t t g c t a a g g t g g a a a a a g g g a a a t c g a a g a a g t t a a a a t c c c g a a t a a g t c a g g a t c a c c a a c g a t t c c a c c t t t t t c c c t t t a g c t t c t t c a a t t t t a g g

4080 1160 1165 1170 1175 VKELLGITIMERSSFEKNPI Cas9 1160 1165 1170 1175 VKELLGITIMERSSFEKNPI Cas9 VKELLGITIMERSSFEKNPI g t t a a a g a g t t a c t a g g g a t c a c a a t t a t g g a a a g a a g t t c c t t t g a a a a a a a t c c g a t t c a a t t t c t c a a t g a t c c c t a g t g t t a a t a c c t t t c t t c a a g g a a a c t t t t t t t a g g c t a a

4140 1180 1185 1190 1195 DFLEAKGYKEVKKDLIIKLP Cas9 1180 1185 1190 1195 DFLEAKGYKEVKKDLIIKLP Cas9 DFLEAKGYKEVKKDLIIKLP g a c t t t t t a g a a g c t a a a g g a t a t a a g g a a g t t a a a a a a g a c t t a a t c a t t a a a c t a c c t c t g a a a a a t c t t c g a t t t c c t a t a t t c c t t c a a t t t t t t c t g a a t t a g t a a t t t g a t g g a

BsiEI 4200 1200 1205 1210 1215 KYSLFELENGRKRMLASAGE Cas9 1200 1205 1210 1215 KYSLFELENGRKRMLASAGE Cas9 KYSLFELENGRKRMLASAGE a a a t a t a g t c t t t t t g a g t t a g a a a a c g g t c g t a a a c g g a t g c t g g c t a g t g c c g g a g a a t t t a t a t c a g a a a a a c t c a a t c t t t t g c c a g c a t t t g c c t a c g a c c g a t c a c g g c c t c t t

4260 1220 1225 1230 1235 LQKGNELALPSKYVNFLYLA Cas9 1220 1225 1230 1235 LQKGNELALPSKYVNFLYLA Cas9 LQKGNELALPSKYVNFLYLA t t a c a a a a a g g a a a t g a g c t g g c t c t g c c a a g c a a a t a t g t g a a t t t t t t a t a t t t a g c t a a t g t t t t t c c t t t a c t c g a c c g a g a c g g t t c g t t t a t a c a c t t a a a a a a t a t a a a t c g a

4320 1240 1245 1250 1255 SHYEKLKGSPEDNEQKQLFV Cas9 1240 1245 1250 1255 SHYEKLKGSPEDNEQKQLFV Cas9 SHYEKLKGSPEDNEQKQLFV a g t c a t t a t g a a a a g t t g a a g g g t a g t c c a g a a g a t a a c g a a c a a a a a c a a t t g t t t g t g t c a g t a a t a c t t t t c a a c t t c c c a t c a g g t c t t c t a t t g c t t g t t t t t g t t a a c a a a c a c

4380 1260 1265 1270 1275 EQHKHYLDEIIEQISEFSKR Cas9 1260 1265 1270 1275 EQHKHYLDEIIEQISEFSKR Cas9 EQHKHYLDEIIEQISEFSKR g a g c a g c a t a a g c a t t a t t t a g a t g a g a t t a t t g a g c a a a t c a g t g a a t t t t c t a a g c g t c t c g t c g t a t t c g t a a t a a a t c t a c t c t a a t a a c t c g t t t a g t c a c t t a a a a g a t t c g c a

4440 1280 1285 1290 1295 VILADANLDKVLSAYNKHRD Cas9 1280 1285 1290 1295 VILADANLDKVLSAYNKHRD Cas9 VILADANLDKVLSAYNKHRD g t t a t t t t a g c a g a t g c c a a t t t a g a t a a a g t t c t t a g t g c a t a t a a c a a a c a t a g a g a c c a a t a a a a t c g t c t a c g g t t a a a t c t a t t t c a a g a a t c a c g t a t a t t g t t t g t a t c t c t g

HincII 4500 1300 1305 1310 1315 KPIREQAENIIHLFTLTNLG Cas9 1300 1305 1310 1315 KPIREQAENIIHLFTLTNLG Cas9 KPIREQAENIIHLFTLTNLG a a a c c a a t a c g t g a a c a a g c a g a a a a t a t t a t t c a t t t a t t t a c g t t g a c g a a t c t t g g a t t t g g t t a t g c a c t t g t t c g t c t t t t a t a a t a a g t a a a t a a a t g c a a c t g c t t a g a a c c t

Eco53kIBsiHKAISacI 4560 1320 1325 1330 1335 APAAFKYFDTTIDRKRYTST Cas9 1320 1325 1330 1335 APAAFKYFDTTIDRKRYTST Cas9 APAAFKYFDTTIDRKRYTST g c t c c c g c t g c t t t t a a a t a t t t t g a t a c a a c a a t t g a t c g t a a a c g a t a t a c g t c t a c a c g a g g g c g a c g a a a a t t t a t a a a a c t a t g t t g t t a a c t a g c a t t t g c t a t a t g c a g a t g t

4620 1340 1345 1350 1355 KEVLDATLIHQSITGLYETR Cas9 1340 1345 1350 1355 KEVLDATLIHQSITGLYETR Cas9 KEVLDATLIHQSITGLYETR a a a g a a g t t t t a g a t g c c a c t c t t a t c c a t c a a t c c a t c a c t g g t c t t t a t g a a a c a c g c t t t c t t c a a a a t c t a c g g t g a g a a t a g g t a g t t a g g t a g t g a c c a g a a a t a c t t t g t g c g

End (4650) 3ʹ 5ʹ 4650 1360 1365 IDLSQLGGD* Cas9 1360 1365 IDLSQLGGD * Cas9 IDLSQLGGD* a t t g a t t t g a g t c a g c t a g g a g g t g a c t g a t a a c t a a a c t c a g t c g a t c c t c c a c t g a c t

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.