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Sequence Analyzer: pICH41373


Map View

PflMI (16) 35S promoter (3529 .. 3549) BmgBI (3465) PshAI (3402) HincII (3166) BsaBI (3074) NsiI (3059) ScaI (2955) StuI (2803) BsmI (2781) BstBI (2705) Bpu10I (2552) MluI (2471) PvuII (2467) BsrGI (2389) EcoRI (2252) AseI (2228) L4440 (2154 .. 2171) PciI (2056) pBR322ori-F (1901 .. 1920) pBRforEco (40 .. 58) ZraI (97) AatII (99) SspI (213) BstEII (608) BclI * (646) MslI (720) BlpI (757) BfuAI - BspMI (795) PvuI (829) BtgZI (1006) BglI (1080) NgoMIV (1097) NaeI (1099) BssHII (1172) BsaAI - SnaBI (1205) pICH41373 3589 bp

Sequence View

PflMI 60 C G G A G C A C T A T G C G G A T A A pBRforEco t a c t t g a g a c c a c g a a g t g g c t c t t c a g t g 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 a t g a a c t c t g g t g c t t c a c c g a g a a g t c a c 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

ZraIAatII 120 t a t a g g t t a a t g t c a t 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 a t c c a a t t a c a g t a 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

180 AmpR promoter a t g t g c g 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 a c a c g c 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

SspI 240 AmpR promoter MRS t g a g a c a 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 a t g c g c t c a c a c t c t g t 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 t a c g c g a g t g

300 RNWSRTLTERSGGNGAVAVF g c a a c t g g t c c a g a a c c t t g a c c g a a c g c a g c g g t g g t a a c g g c g c a g t g g c g g t t t t c a c g t t g a c c a g g t c t t g g a a c t g g c t t g c g t c g c c a c c a t t g c c g c g t c a c c g c c a a a a g t

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

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

480 1 5 10 MREAVIAEVS SmR GSRPKTKLNIMREAVIAEVS g c a g t c g c c c t a a a a c a a a g t t a a a c a t c a t g a g g g a a g c g g t g a t c g c c g a a g t a t c g a c g t c a g c g g g a t t t t g t t t c a a t t t g t a g t a c t c c c t t c g c c a c t a g c g g c t t c a t a g c t

540 15 20 25 30 TQLSEVVGVIERHLEPTLLA SmR TQLSEVVGVIERHLEPTLLA c t c a a c t a t c a g a g g t a g t t g g c g t c a t c g a g c g c c a t c t c g a a c c g a c g t t g c t g g c c g g a g t t g a t a g t c t c c a t c a a c c g c a g t a g c t c g c g g t a g a g c t t g g c t g c a a c g a c c g g c

600 35 40 45 50 VHLYGSAVDGGLKPHSDIDL SmR VHLYGSAVDGGLKPHSDIDL t a c a t t t g t a c g g c t c c g c a g t g g a t g g c g g c c t g a a g c c a c a c a g c g a t a t t g a t t t g c a t g t a a a c a t g c c g a g g c g t c a c c t a c c g c c g g a c t t c g g t g t g t c g c t a t a a c t a a a c g

BclI*BstEII 660 55 60 65 70 LVTVTVRLDETTRRALINDL SmR LVTVTVRLDETTRRALINDL t g g t t a c g g t g a c c g t a a g g c t t g a t g a a a c a a c g c g g c g a g c t t t g a t c a a c g a c c t t t a c c a a t g c c a c t g g c a t t c c g a a c t a c t t t g t t g c g c c g c t c g a a a c t a g t t g c t g g a a a

MslI 720 75 80 85 90 LETSASPGESEILRAVEVTI SmR LETSASPGESEILRAVEVTI t g g a a a c t t c g g c t t c c c c t g g a g a g a g c g a g a t t c t c c g c g c t g t a g a a g t c a c c a t t g a c c t t t g a a g c c g a a g g g g a c c t c t c t c g c t c t a a g a g g c g c g a c a t c t t c a g t g g t a a c

BlpI 780 95 100 105 110 VVHDDIIPWRYPAKRELQFG SmR VVHDDIIPWRYPAKRELQFG t t g t g c a c g a c g a c a t c a t t c c g t g g c g t t a t c c a g c t a a g c g c g a a c t g c a a t t t g g a g a a c a c g t g c t g c t g t a g t a a g g c a c c g c a a t a g g t c g a t t c g c g c t t g a c g t t a a a c c t c

PvuIBspMIBfuAI 840 115 120 125 130 EWQRNDILAGIFEPATIDID SmR EWQRNDILAGIFEPATIDID a a t g g c a g c g c a a t g a c a t t c t t g c a g g t a t c t t c g a g c c a g c c a c g a t c g a c a t t g a t c t t a c c g t c g c g t t a c t g t a a g a a c g t c c a t a g a a g c t c g g t c g g t g c t a g c t g t a a c t a g

900 135 140 145 150 LAILLTKAREHSVALVGPAA SmR LAILLTKAREHSVALVGPAA t g g c t a t c t t g c t g a c a a a a g c a a g a g a a c a t a g c g t t g c c t t g g t a g g t c c a g c g g c g g a c c g a t a g a a c g a c t g t t t t c g t t c t c t t g t a t c g c a a c g g a a c c a t c c a g g t c g c c g c c

960 155 160 165 170 EELFDPVPEQDLFEALNETL SmR EELFDPVPEQDLFEALNETL a g g a a c t c t t t g a t c c g g t t c c t g a a c a g g a t c t a t t t g a g g c g c t a a a t g a a a c c t t a a t c c t t g a g a a a c t a g g c c a a g g a c t t g t c c t a g a t a a a c t c c g c g a t t t a c t t t g g a a t t

BtgZI 1020 175 180 185 190 TLWNSPPDWAGDERNVVLTL SmR TLWNSPPDWAGDERNVVLTL c g c t a t g g a a c t c g c c g c c c g a c t g g g c t g g c g a t g a g c g a a a t g t a g t g c t t a c g t t g t g c g a t a c c t t g a g c g g c g g g c t g a c c c g a c c g c t a c t c g c t t t a c a t c a c g a a t g c a a c a

BglI 1080 195 200 205 210 SRIWYSAVTGKIAPKDVAAD SmR SRIWYSAVTGKIAPKDVAAD c c c g c a t t t g g t a c a g c g c a g t a a c c g g c a a a a t c g c g c c g a a g g a t g t c g c t g c c g a c t g g g c g t a a a c c a t g t c g c g t c a t t g g c c g t t t t a g c g c g g c t t c c t a c a g c g a c g g c t g a

NgoMIVNaeI 1140 215 220 225 230 WAMERLPAQYQPVILEARQA SmR WAMERLPAQYQPVILEARQA g g g c a a t g g a g c g c c t g c c g g c c c a g t a t c a g c c c g t c a t a c t t g a a g c t a g a c a g g c t t c c c g t t a c c t c g c g g a c g g c c g g g t c a t a g t c g g g c a g t a t g a a c t t c g a t c t g t c c g a a

BssHII 1200 235 240 245 250 YLGQEEDRLASRADQLEEFV SmR YLGQEEDRLASRADQLEEFV a t c t t g g a c a a g a a g a a g a t c g c t t g g c c t c g c g c g c a g a t c a g t t g g a a g a a t t t g t c c t a g a a c c t g t t c t t c t t c t a g c g a a c c g g a g c g c g c g t c t a g t c a a c c t t c t t a a a c a g g

SnaBIBsaAI 1260 255 260 HYVKGEITKVVGK* SmR HYVKGEITKVVGK* a t t a c g t a a a a g g c g a g a t c a c c a a g g t a g t c g g c a a a t a a c t g t c a g a c c a a g t t t a c t t a a t g c a t t t t c c g c t c t a g t g g t t c c a t c a g c c g t t t a t t g a c a g t c t g g t t c a a a t g a

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

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

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

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

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

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

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

1740 ori 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 g g g g t t 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 c c c c c a a

1800 ori 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 a g c g t g 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 g t c g c a c

1860 ori 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 a a g c g 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 c a t t c g c

1920 ori G G G A A A C G C C T G G T A T C T T T pBR322ori-F 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 t a t c t t t 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 a t a g a a a

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

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

PciI 2100 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 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 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 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

2160 A G C G A G T L4440 t t a c c g c c t t t g a g t g a g c t g a t a c c g c t c g c c g c a g c c g a a c g a c c g a g c g c a g c g a g t a a t g g c g g a a a c t c a c t c g a c t a t g g c g a g c g g c g t c g g c t t g c t g g c t c g c g t c g c t c a

2220 C A G T G A G C G A G L4440 c a g t g a g c g a g g a a g c g g a a g a g c g c c c a a t a c g c a a a c c g c c t c t c c c c g c g c g t t g g c g t c a c t c g c t c c t t c g c c t t c t c g c g g g t t a t g c g t t t g g c g g a g a g g g g c g c g c a a c c g

EcoRIAseI 2280 c g a t t c a t t a a t c a c t c t g t g g t c t c a g g a g g a a t t c c a a t c c c a c a a a a a t c t g a g c t t g c t a a g t a a t t a g t g a g a c a c c a g a g t c c t c c t t a a g g t t a g g g t g t t t t t a g a c t c g a a

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

BsrGI 2400 t a c g t t g t g t a t a a c g g t c c a c a t g c c g g t a t a t a c g a t g a c t g g g g t t g t a c a a a g g c g a t g c a a c a c a t a t t g c c a g g t g t a c g g c c a t a t a t g c t a c t g a c c c c a a c a t g t t t c c g c

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

PvuIIMluI 2520 g c a g c a g c t g a c g c g t a c a c a a c a a g t c a g c a a a c a g a c a g g t t g a a c t t c a t c c c c a a a c g t c g t c g a c t g c g c a t g t g t t g t t c a g t c g t t t g t c t g t c c a a c t t g a a g t a g g g g t t t

Bpu10I 2580 g g a g a a g c t c a a c t c a a g c c c a a g a g c t t t g c t a a g g c c c t a a c a a g c c c a c c a a a g c a a c c t c t t c g a g t t g a g t t c g g g t t c t c g a a a c g a t t c c g g g a t t g t t c g g g t g g t t t c g t t

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

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

BstBI 2760 a a g t t c g a a g g t g a a g g t g a c g a c a c t a t g t t c a c c a c t g a t a a t g a g a a g g t t a g c c t c t t c a a g c t t c c a c t t c c a c t g c t g t g a t a c a a g t g g t g a c t a t t a c t c t t c c a a t c g g a g

StuIBsmI 2820 t t c a a t t t c a g a a a g a a t g c t g a c c c a c a g a t g g t t a g a g a g g c c t a c g c a g c a a g t c t c a a g t t a a a g t c t t t c t t a c g a c t g g g t g t c t a c c a a t c t c t c c g g a t g c g t c g t t c a g a g

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

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

ScaI 3000 c t c a a g a t c a g a a g t a c t a t t c c a g t a t g g a c g a t t c a a g g c t t g c t t c a t a a a c c a a g g g a g t t c t a g t c t t c a t g a t a a g g t c a t a c c t g c t a a g t t c c g a a c g a a g t a t t t g g t t c c

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

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

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

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

3300 CaMV 35S promoter t g a g a c t t t t c a a c a a a g g a t a a t t t c g g g a a a c c t c c t c g g a t t c c a t t g c c c a g c t a t a c t c t g a a a a g t t g t t t c c t a t t a a a g c c c t t t g g a g g a g c c t a a g g t a a c g g g t c g a t a

3360 CaMV 35S promoter c t g t c a c t t c a t c g a a a g g a c a g t a g a a a a g g a a g g t g g c t c c t a c a a a t g c c a t c a t t g g a c a g t g a a g t a g c t t t c c t g t c a t c t t t t c c t t c c a c c g a g g a t g t t t a c g g t a g t a a c

PshAI 3420 CaMV 35S promoter c g a t a a a g g a a a g g c t a t c a t t c a a g a t c t c t c t g c c g a c a g t g g t c c c a a a g a t g g a c c g c t a t t t c c t t t c c g a t a g t a a g t t c t a g a g a g a c g g c t g t c a c c a g g g t t t c t a c c t g g

BmgBI 3480 CaMV 35S promoter c c c a c c c a c g a g g a g c a t c g t g g a a a a a g a a g a g g t t c c a a c c a c g t c t a c a a a g c a a g t g g g t g g g t g c t c c t c g t a g c a c c t t t t t c t t c t c c a a g g t t g g t g c a g a t g t t t c g t t c a

3540 CaMV 35S promoter C T A T C C T T C G C A 35S promoter g g a t t g a t g t g a c a t c t c c a c t g a c g t a a g g g a t g a c g c a c a a t c c c a c t a t c c t t c g c a c c t a a c t a c a c t g t a g a g g t g a c t g c a t t c c c t a c t g c g t g t t a g g g t g a t a g g a a g c g t

3589 CaMV 35S promoter A G A C C C T T C 35S promoter a g a c c c t t c c t c t a t a t a a g g a a g t t c a t t t c a t t t g g a g a g g a c a c g c t c t g g g a a g g a g a t a t a t t c c t t c a a g t a a a g t a a a c c t c t c c t g t g c g

Restriction Enzymes

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

Filter

Features

Primers

BLAST

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

  • Nucleotide-Nucleotide BLAST (BLASTN)

  • Translated Nucleotide-Protein BLAST (BLASTX)

  • Sequence alignment using BLAST (BLAST2)

Sequence Analyzer Guide

Map

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

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

Sequence

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

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

Enzymes

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

Features

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

Primers

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

BLAST

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

File Downloads

GenBank

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

SnapGene

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