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Addgene

Sequence Analyzer: C83m


Map View

BseYI (2977) pBR322ori-F (2814 .. 2833) NspI (2677) AflIII - PciI (2673) L4440 (2563 .. 2580) PstI (2556) BstBI (2389) AflII (2102) HincII - HpaI (2086) MfeI (2079) BfuAI - BspMI (1927) EcoRV (1892) BtgZI (1801) AfeI (1798) BmgBI (1631) XbaI (1586) BioBrick prefix EcoRI (1571) PspFI (2981) AlwNI (66) BmrI (583) BpmI (613) BsrFI (623) BglI (663) NmeAIII (691) AseI (715) FspI (765) PvuI (913) ScaI (1023) Amp-R (1093 .. 1112) XmnI (1142) ZraI (1463) AatII (1465) pBRforEco (1503 .. 1521) C83m 3023 bp

Sequence View

60 ori t a t c c g g t a a c t a t c g t c t t g a g t c c a a c c c g g t a a g a c a c g a c t t a t c g c c a c t g g c a g a t a g g c c a t t g a t a g c a g a a c t c a g g t t g g g c c a t t c t g t g c t g a a t a g c g g t g a c c g t c

AlwNI 120 ori c a g c c a c t g g t a a c a g g a t t a g c a g a g c g a g g t a t g t a g g c g g t g c t a c a g a g t t c t t g a g t c g g t g a c c a t t g t c c t a a t c g t c t c g c t c c a t a c a t c c g c c a c g a t g t c t c a a g a a c t

180 ori a g t g g t g g c c t a a c t a c g g c t a c a c t a g a a g a a c a g t a t t t g g t a t c t g c g c t c t g c t g a t c a c c a c c g g a t t g a t g c c g a t g t g a t c t t c t t g t c a t a a a c c a t a g a c g c g a g a c g a c t

240 ori a g c c a g t t a c c t t c g g a a a a a g a g t t g g t a g c t c t t g a t c c g g c a a a c a a a c c a c c g c t g t c g g t c a a t g g a a g c c t t t t t c t c a a c c a t c g a g a a c t a g g c c g t t t g t t t g g t g g c g a c

300 ori g t a g c g g t g g t t t t t t t g t t t g c a a g c a g c a g a t t a c g c g c a g a a a a a a a g g a t c t c a a g c a t c g c c a c c a a a a a a a c a a a c g t t c g t c g t c t a a t g c g c g t c t t t t t t t c c t a g a g t t c

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

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

480 285 *WHK AmpR *WHK g a a g t t t t a a a t c a a t c t a a a g t a t a t a t g a g t a a a c t t g g t c t g a c a g t t a c c a a t g c t c t t c a a a a t t t a g t t a g a t t t c a t a t a t a c t c a t t t g a a c c a g a c t g t c a a t g g t t a c g a

540 280 275 270 265 ILSAGIEAIQRNREDMTAQS AmpR ILSAGIEAIQRNREDMTAQS t a a t c a g t g a g g c a c c t a t c t c a g c g a t c t g t c t a t t t c g t t c a t c c a t a g t t g c c t g a c a t t a g t c a c t c c g t g g a t a g a g t c g c t a g a c a g a t a a a g c a a g t a g g t a t c a a c g g a c t g

BmrI 600 260 255 250 245 GTTYIVVIRSPKGDPGLAAI AmpR GTTYIVVIRSPKGDPGLAAI t c c c c g t c g t g t a g a t a a c t a c g a t a c g g g a g g g c t t a c c a t c t g g c c c c a g t g c t g c a a a g g g g c a g c a c a t c t a t t g a t g c t a t g c c c t c c c g a a t g g t a g a c c g g g g t c a c g a c g t t

BsrFIBpmI 660 240 235 230 225 IGRSGREGAGSKDAIFWGAP AmpR IGRSGREGAGSKDAIFWGAP t g a t a c c g c g c g a c c c a c g c t c a c c g g c t c c a g a t t t a t c a g c a a t a a a c c a g c c a g c c g a c t a t g g c g c g c t g g g t g c g a g t g g c c g a g g t c t a a a t a g t c g t t a t t t g g t c g g t c g g c

AseINmeAIIIBglI 720 220 215 210 205 LASRLLPGAVKDAEMWDILQ AmpR LASRLLPGAVKDAEMWDILQ g a a g g g c c g a g c g c a g a a g t g g t c c t g c a a c t t t a t c c g c c t c c a t c c a g t c t a t t a a t t c t t c c c g g c t c g c g t c t t c a c c a g g a c g t t g a a a t a g g c g g a g g t a g g t c a g a t a a t t a a

FspI 780 200 195 190 185 QRSALTLLEGTLLKRLTTAM AmpR QRSALTLLEGTLLKRLTTAM g t t g c c g g g a a g c t a g a g t a a g t a g t t c g c c a g t t a a t a g t t t g c g c a a c g t t g t t g c c a c a a c g g c c c t t c g a t c t c a t t c a t c a a g c g g t c a a t t a t c a a a c g c g t t g c a a c a a c g g t

840 180 175 170 165 AVPMTTDREDNPIAENLEPE AmpR AVPMTTDREDNPIAENLEPE t t g c t a c a g g c a t c g t g g t g t c a c g c t c g t c g t t t g g t a t g g c t t c a t t c a g c t c c g g t t a a c g a t g t c c g t a g c a c c a c a g t g c g a g c a g c a a a c c a t a c c g a a g t a a g t c g a g g c c a a

900 160 155 150 145 WRDLRTVHDGMNHLFATLEK AmpR WRDLRTVHDGMNHLFATLEK c c c a a c g a t c a a g g c g a g t t a c a t g a t c c c c c a t g t t g t g c a a a a a a g c g g t t a g c t c c t g g g t t g c t a g t t c c g c t c a a t g t a c t a g g g g g t a c a a c a c g t t t t t t c g c c a a t c g a g g a

PvuI 960 140 135 130 125 PGGITTLLLNAATNDSMTIA AmpR PGGITTLLLNAATNDSMTIA t c g g t c c t c c g a t c g t t g t c a g a a g t a a g t t g g c c g c a g t g t t a t c a c t c a t g g t t a t g g a g c c a g g a g g c t a g c a a c a g t c t t c a t t c a a c c g g c g t c a c a a t a g t g a g t a c c a a t a c c

1020 120 115 110 105 ASCLERVTMGDTLHKETVPS AmpR ASCLERVTMGDTLHKETVPS c a g c a c t g c a t a a t t c t c t t a c t g t c a t g c c a t c c g t a a g a t g c t t t t c t g t g a c t g g t g g t c g t g a c g t a t t a a g a g a a t g a c a g t a c g g t a g g c a t t c t a c g a a a a g a c a c t g a c c a c

ScaI 1080 100 95 90 85 YEVLDNQSYHIRRGLQEQGA AmpR YEVLDNQSYHIRRGLQEQGA a g t a c t c a a c c a a g t c a t t c t g a g a a t a g t g t a t g c g g c g a c c g a g t t g c t c t t g c c c g g t c a t g a g t t g g t t c a g t a a g a c t c t t a t c a c a t a c g c c g c t g g c t c a a c g a g a a c g g g c c

1140 80 75 70 65 DIRSLVAGCLLVKFTSMMPF AmpR A T A A T A C C G C G C C A C A T A G C Amp-R DIRSLVAGCLLVKFTSMMPF c g t c a a t a c g g g a t a a t a c c g c g c c a c a t a g c a g a a c t t t a a a a g t g c t c a t c a t t g g a a g c a g t t a t g c c c t a t t a t g g c g c g g t g t a t c g t c t t g a a a t t t t c a c g a g t a g t a a c c t t

XmnI 1200 60 55 50 45 REEPRFSELIKGSNLDLEIY AmpR REEPRFSELIKGSNLDLEIY a a c g t t c t t c g g g g c g a a a a c t c t c a a g g a t c t t a c c g c t g t t g a g a t c c a g t t c g a t g t t t g c a a g a a g c c c c g c t t t t g a g a g t t c c t a g a a t g g c g a c a a c t c t a g g t c a a g c t a c a

1260 40 35 30 25 GVRAGLQDEADKVKVLTEPH AmpR GVRAGLQDEADKVKVLTEPH a a c c c a c t c g t g c a c c c a a c t g a t c t t c a g c a t c t t t t a c t t t c a c c a g c g t t t c t g g g t t t g g g t g a g c a c g t g g g t t g a c t a g a a g t c g t a g a a a a t g a a a g t g g t c g c a a a g a c c c a

1320 20 15 10 5 signal sequence AFVPLCFAAFFPILAVRFHQ AmpR AFVPLCFAAFFPILAVRFHQ g a g c a a a a a c a g g a a g g c a a a a t g c c g c a a a a a a g g g a a t a a g g g c g a c a c g g a a a t g t t c t c g t t t t t g t c c t t c c g t t t t a c g g c g t t t t t t c c c t t a t t c c c g c t g t g c c t t t a c a a

1380 1 signal sequence ISM AmpR AmpR promoter ISM g a a t a c t c a t a c t c t t c c t t t t t c a a t a t t a t t g a a g c a t t t a t c a g g g t t a t t g t c t c a c t t a t g a g t a t g a g a a g g a a a a a g t t a t a a t a a c t t c g t a a a t a g t c c c a a t a a c a g a g t

1440 AmpR promoter t g a g c g g a t a c a t a t t t g a a t g t a t t t a g a a a a a t a a a c a a a t a g g g g t t c c g c g c a c a t a c t c g c c t a t g t a t a a a c t t a c a t a a a t c t t t t t a t t t g t t t a t c c c c a a g g c g c g t g t a

ZraIAatII 1500 t t c c c c g a a a a g t g c c a c c t g a c g t c t a a g a a a c c a t t a t t a t c a t g a c a t t a a c c t a t a a a g g g g c t t t t c a c g g t g g a c t g c a g a t t c t t t g g t a a t a a t a g t a c t g t a a t t g g a t a t

1560 bacterial terminator A A T A G G C G T A T C A C G A G G C pBRforEco a a a a t a g g c g t a t c a c g a g g c a g a a t t t c a g a t a a a a a a a a t c c t t a g c t t t c g c t a a g g t t t t a t c c g c a t a g t g c t c c g t c t t a a a g t c t a t t t t t t t t a g g a a t c g a a a g c g a t t c c

XbaIEcoRI 1620 bacterial terminator BioBrick prefix MRLK a t g a t t t c t g g a a t t c g c g g c c g c t t c t a g a g a c t a g t g g g t c t c a a a t g a g a c t c a a g g t a c t a a a g a c c t t a a g c g c c g g c g a a g a t c t c t g a t c a c c c a g a g t t t a c t c t g a g t t c c

BmgBI 1680 VMMDVNKKTKIRHRNELNHT t c a t g a t g g a c g t g a a c a a a a a a a c g a a a a t t c g c c a c c g a a a c g a g c t a a a t c a c a c c c a g t a c t a c c t g c a c t t g t t t t t t t g c t t t t a a g c g g t g g c t t t g c t c g a t t t a g t g t g g g

1740 LAQLPLPAKRVMYMALAPID t g g c t c a a c t t c c t t t g c c c g c a a a g c g a g t g a t g t a t a t g g c g c t t g c t c c c a t t g a t a a c c g a g t t g a a g g a a a c g g g c g t t t c g c t c a c t a c a t a t a c c g c g a a c g a g g g t a a c t a t

AfeI 1800 SKEPLERGRVFKIRAEDLAA g c a a a g a a c c t c t t g a a c g a g g g c g a g t t t t c a a a a t t a g g g c t g a a g a t c t t g c a g c g c c g t t t c t t g g a g a a c t t g c t c c c g c t c a a a a g t t t t a a t c c c g a c t t c t a g a a c g t c g c g

BtgZI 1860 LAKITPSLAYRQLKEGGKLL t c g c c a a a a t c a c c c c a t c g c t t g c t t a t c g a c a a t t a a a a g a g g g t g g t a a a t t a c t t g a g c g g t t t t a g t g g g g t a g c g a a c g a a t a g c t g t t a a t t t t c t c c c a c c a t t t a a t g a a c

EcoRV 1920 GASKISLRGDDIIALAKELN g t g c c a g c a a a a t t t c g c t a a g a g g g g a t g a t a t c a t t g c t t t a g c t a a a g a g c t t a a c c c a c g g t c g t t t t a a a g c g a t t c t c c c c t a c t a t a g t a a c g a a a t c g a t t t c t c g a a t t g g

BspMIBfuAI 1980 LPFTAKNSPEELDLNIIEWI t g c c c t t t a c t g c t a a a a a c t c c c c t g a a g a g t t a g a t c t t a a c a t t a t t g a g t g g a t a g a c g g g a a a t g a c g a t t t t t g a g g g g a c t t c t c a a t c t a g a a t t g t a a t a a c t c a c c t a t c

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

HincIIHpaIMfeI 2100 ISSLIGKKNKFTTQLLTASL t c t c t a g c c t t a t t g g g a a a a a a a a t a a a t t c a c a a c g c a a t t g t t a a c g g c a a g c t t a c a g a g a t c g g a a t a a c c c t t t t t t t t a t t t a a g t g t t g c g t t a a c a a t t g c c g t t c g a a t g

AflII 2160 RLSSQYSSSLYQLIRKHYSN g c t t a a g t a g c c a g t a t t c a t c t t c t c t t t a t c a a c t t a t c a g g a a g c a t t a c t c t a a t t c g a a t t c a t c g g t c a t a a g t a g a a g a g a a a t a g t t g a a t a g t c c t t c g t a a t g a g a t t a a

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

2280 YTFDKDGNIEYKYPDFPIFK a t a c t t t t g a t a a a g a t g g a a a t a t t g a g t a c a a a t a c c c t g a c t t t c c t a t t t t t a a a a t a t g a a a a c t a t t t c t a c c t t t a t a a c t c a t g t t t a t g g g a c t g a a a g g a t a a a a a t t t t

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

BstBI 2400 GFTVHEKEGRKISKLKFEFV g c t t c a c t g t t c a t g a a a a a g a a g g a a g a a a a a t t a g t a a g c t g a a g t t c g a a t t t g t c g c g a a g t g a c a a g t a c t t t t t c t t c c t t c t t t t t a a t c a t t c g a c t t c a a g c t t a a a c a g c

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

2520 EADAAFLKVFDETVPPKKAK a a g c t g a t g c a g c t t t t c t c a a g g t a t t t g a t g a a a c c g t a c c t c c c a a a a a a g c t a a g g t t c g a c t a c g t c g a a a a g a g t t c c a t a a a c t a c t t t g g c a t g g a g g g t t t t t t c g a t t c c

PstI 2580 BioBrick suffix G A G C G A G T G A C T G A G C G A L4440 G* g g t g a a g g t a g a g a c c t a c t a g t a g c g g c c g c t g c a g g c t t c c t c g c t c a c t g a c t c g c t c c a c t t c c a t c t c t g g a t g a t c a t c g c c g g c g a c g t c c g a a g g a g c g a g t g a c t g a g c g a

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

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

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

2820 ori T T T C T A T pBR322ori-F g c a t c a c a a a a a t c g a c g c t c a a g t c a g a g g t g g c g a a a c c c g a c a g g a c t a t a a a g a t a c g t a g t g t t t t t a g c t g c g a g t t c a g t c t c c a c c g c t t t g g g c t g t c c t g a t a t t t c t a t

2880 ori G G T C C G C A A A G G G pBR322ori-F c c a g g c g t t t c c c c c t g g a a g c t c c c t c g t g c g c t c t c c t g t t c c g a c c c t g c c g c t t a c g g t c c g c a a a g g g g g a c c t t c g a g g g a g c a c g c g a g a g g a c a a g g c t g g g a c g g c g a a t g

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

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

3023 ori c g t t c a g c c c g a c c g c t g c g c c t g c a a g t c g g g c t g g c g a c g c g g a

Restriction Enzymes

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

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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.