Addgene pB1H2w5-Prd Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pB1H2w5-Prd Sequencing Result

Map View

800 600 400 200 End (805) SspI (622) KpnI (552) BanI - Acc65I (548) AgeI - BsrFI (524) RsrII (522) BspEI (519) AcuI (495) SacII (492) NotI - EagI (486) NruI (414) BclI * (387) EciI (327) BsrBI (325) PpuMI EcoO109I (319) CsiI - SexAI * (267) BstEII (254) SfcI (240) MluI - AflIII (220) MfeI (178) ApoI (162) BseRI (133) TsoI (115) BpmI (98) Start (0) RNAP ω FLAG pB1H2w5-Prd 805 bp

Sequence View

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

TsoIBpmI 120 HHKXPYQTSSTKLTKSFLQR t c a t c a c a a a n t a c c g t a c c a a a c g t c c t c a a c c a a a t t a a c c a a a t c t t t t c t c c a g a g a g t a g t g t t t n a t g g c a t g g t t t g c a g g a g t t g g t t t a a t t g g t t t a g a a a a g a g g t c t c

MfeIApoIBseRI 180 SNAAYYKKPSKPARILKKHN g a g c a a c g c a g c t t a t t a c a a g a a g c c a t c g a a a c c t g c a a g a a t t t t g a a a a a a c a c a a c t c g t t g c g t c g a a t a a t g t t c t t c g g t a g c t t t g g a c g t t c t t a a a a c t t t t t t g t g t t

AflIIIMluI 240 1 5 MARVTVQDA RNAP ω CKSRLQEGDIPMARVTVQDA t t g t a a g t c t c g g c t c c a a g a a g g a g a t a t a c c c a t g g c a c g c g t a a c t g t t c a g g a c g c a a c a t t c a g a g c c g a g g t t c t t c c t c t a t a t g g g t a c c g t g c g c a t t g a c a a g t c c t g c g

SexAI*CsiIBstEIISfcI 300 10 15 20 25 VEKIGNRFDLVLVAARRARQ RNAP ω VEKIGNRFDLVLVAARRARQ t g t a g a g a a a a t t g g t a a c c g t t t t g a c c t g g t a c t g g t c g c c g c g c g t c g c g c t c g t c a a c a t c t c t t t t a a c c a t t g g c a a a a c t g g a c c a t g a c c a g c g g c g c g c a g c g c g a g c a g t

EcoO109IPpuMIBsrBIEciI 360 30 35 40 45 MQVGGKDPLVPEENDKTTVI RNAP ω MQVGGKDPLVPEENDKTTVI g a t g c a g g t a g g c g g a a a g g a c c c g c t c g t a c c g g a a g a a a a c g a t a a a a c c a c t g t a a t c t a c g t c c a t c c g c c t t t c c t g g g c g a g c a t g g c c t t c t t t t g c t a t t t t g g t g a c a t t a

NruIBclI* 420 50 55 60 65 ALREIEEGLINNQILDVRER RNAP ω ALREIEEGLINNQILDVRER c g c g c t g c g c g a a a t c g a a g a a g g t c t g a t c a a c a a c c a g a t c c t c g a c g t t c g c g a a c g g c g c g a c g c g c t t t a g c t t c t t c c a g a c t a g t t g t t g g t c t a g g a g c t g c a a g c g c t t g c

480 70 75 80 85 QEQQEQEAAELQAVTAIAEG RNAP ω QEQQEQEAAELQAVTAIAEG c c a g g a a c a g c a a g a g c a g g a a g c c g c t g a a t t a c a a g c c g t t a c c g c t a t t g c t g a a g g g g t c c t t g t c g t t c t c g t c c t t c g g c g a c t t a a t g t t c g g c a a t g g c g a t a a c g a c t t c c

BspEIRsrIIBsrFIAgeIEagINotISacIIAcuI 540 90 R AAA 1 5 DYKDDDDK (in frame with FLAG) FRTGSKTP RNAP ω FLAG RAAADYKDDDDKFRTGSKTP t c g t g c g g c c g c g g a c t a c a a g g a t g a c g a c g a c a a g t t c c g g a c c g g t t c c a a g a c a c c a g c a c g c c g g c g c c t g a t g t t c c t a c t g c t g c t g t t c a a g g c c t g g c c a a g g t t c t g t g g

Acc65IBanIKpnI 600 (in frame with FLAG) PHGTNSGQGRVNQLGGVFIN PHGTNSGQGRVNQLGGVFIN c c c c c a t g g t a c c a a c a g c g g c c a g g g g c g c g t c a a t c a a c t a g g t g g a g t t t t c a t c a a g g g g g t a c c a t g g t t g t c g c c g g t c c c c g c g c a g t t a g t t g a t c c a c c t c a a a a g t a g t t

SspI 660 (in frame with FLAG) GRPLPNNIRLKXVEMXADGI GRPLPNNIRLKXVEMXADGI c g g t c g t c c t t t g c c c a a c a a t a t t c g t c t t a a a n t c g t c g a g a t g n c c g c c g a t g g c a t g c c a g c a g g a a a c g g g t t g t t a t a a g c a g a a t t t n a g c a g c t c t a c n g g c g g c t a c c g t a

720 (in frame with FLAG) XALCELXTASXVXWXAYRRS XALCELXTASXVXWXAYRRS t n c g g c c c t g t g t g a a c t c g a n a c a g c t t c a t g n g t c n a a t g g n t t g c g t a t c g a a g a t c a n g c c g g g a c a c a c t t g a g c t n t g t c g a a g t a c n c a g n t t a c c n a a c g c a t a g c t t c t a g

780 ** c t g a a t c g c t a c c g g g a g a c t g g c t t c c t t a g a c c a g g c g t a a t t g g g g g n t c c a a g c c g g a c t t a g c g a t g g c c c t c t g a c c g a a g g a a t c t g g t c c g c a t t a a c c c c c n a g g t t c g g c

End (805) 3ʹ 5ʹ 805 a g n a t a g c c n c n c c c g a a a t c g a a a t c n t a t c g g n g n g g g c t t t a g c t t 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.