Addgene pX600-AAV-CMV::NLS-SaCas9-NLS-3xHA-bGHpA Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pX600-AAV-CMV::NLS-SaCas9-NLS-3xHA-bGHpA Sequencing Result


Map View

1000 750 500 250 End (1018) PflMI - DraIII (984) BanII - Bsp1286I (837) AlwNI (789) SfcI (566) BmgBI (558) AflIII (555) NmeAIII (402) BfuAI - BspMI - BsaWI (330) EcoO109I (265) FseI (119) BglI (116) MflI * - BstYI - BamHI (91) AflII - SmlI (6) ApoI - EcoRI (1) Start (0) 3xHA nucleoplasmin NLS pX600-AAV-CMV::NLS-SaCas9-NLS-3xHA-bGHpA 1018 bp

Sequence View

SmlIAflIIStart (0) EcoRIApoI 5ʹ 3ʹ 60 * 25 20 15 AYDPVDYPYAYDPVDYP 3xHA EFLSVIWNIVWVSVIWNIVW *AYDPVDYPYAYDPVDYP g a a t t c t t a a g c g t a a t c t g g a a c a t c g t a t g g g t a a g c g t a a t c t g g a a c a t c g t a t g g c t t a a g a a t t c g c a t t a g a c c t t g t a g c a t a c c c a t t c g c a t t a g a c c t t g t a g c a t a c c

BglIFseIBamHIBstYIMflI* 120 10 5 1 YAYDPVDYPY SG 15 10 KKKKAQGA 3xHA nucleoplasmin NLS VSVIWNIVWVGSLFLFCLAG YAYDPVDYPYSGKKKKAQGA g t a a g c g t a a t c t g g a a c a t c g t a t g g g t a g g a t c c c t t t t t c t t t t t t g c c t g g c c g g c c a t t c g c a t t a g a c c t t g t a g c a t a c c c a t c c t a g g g a a a a a g a a a a a a c g g a c c g g c c g

180 5 1 KKTAAPRK nucleoplasmin NLS LFRGRRPFALFDDLRVLLRF KKTAAPRKGKKIIQPHKKSK c t t t t t c g t g g c c g c c g g c c t t t t g c c c t t t t t g a t g a t c t g a g g g t g c t t c t t a g a t t t g a a a a a g c a c c g g c g g c c g g a a a a c g g g a a a a a c t a c t a g a c t c c c a c g a a g a a t c t a a a

240 HFIQVAQNVCAVLLNALGLG VEYLNGLIDTSYKKISQTKS c a c t t c a t a c a g g t t g c c c a g a a t g t c t g t g c t g t a c t t c t t a a t g c t c t g g g t c t t g g a g t g a a g t a t g t c c a a c g g g t c t t a c a g a c a c g a c a t g a a g a a t t a c g a g a c c c a g a a c c t

EcoO109I 300 GDCLNDPGGPLVVHVFQVLA AITKIIRPPRKDNMNELYER g g c g a t t g t c t t a a t g a t c c t g g g g g g c c t c t t g t c g t t c a t g t t t t c c a g g t a c t c g c g c c g c t a a c a g a a t t a c t a g g a c c c c c c g g a g a a c a g c a a g t a c a a a a g g t c c a t g a g c g c

BsaWIBspMIBfuAI 360 VGDVDHVHFDPVQQVVVHAD YTIDIMNVEIRNLLDNNVGI g t a g g t g a t g t c g a t c a t g t t c a c t t c g a t c c g g t t c a g c a g g t c g t t g t t c a c g c c g a t c a t c c a c t a c a g c t a g t a c a a g t g a a g c t a g g c c a a g t c g t c c a g c a a c a a g t g c g g c t a

NmeAIII 420 HSIQLAVDLDQIVVVEGGDK VRYLEGNIKILDNNYFSAIF c a c t c t a t a c a g c t c g c c g t t g a t c t t g a t c a g a t c g t t g t t g t a g a a g g a g g c g a t a a a g t g a g a t a t g t c g a g c g g c a a c t a g a a c t a g t c t a g c a a c a a c a t c t t c c t c c g c t a t t t

480 LGLVADLLQLLSFLIALAIH EAQNSIKKLKKAEEYCKSNV c t c g g c c t g g t t g c t g a t c t t c t t c a g c t t c t t a g c t t c c t c a t a g c a c t t g c t a t t c a c g a g c c g g a c c a a c g a c t a g a a g a a g t c g a a g a a t c g a a g g a g t a t c g t g a a c g a t a a g t g

540 FVVVFFFDHIQILHGHELVH EYYNEKKIVDLNKVTVFKYV t t c g t a g t a g t t t t c t t t t t t g a t c a c a t c c a g a t t c t t c a c g g t c a c g a a c t t g t a c a c a a g c a t c a t c a a a a g a a a a a a c t a g t g t a g g t c t a a g a a g t g c c a g t g c t t g a a c a t g t g

SfcIAflIIIBmgBI 600 AIVQVHVESVGLQGQLHDLV GNDLYVDFRYPKLSLKVVKN g c c a t t g t c c a g g t a c a c g t c g a a t c t g t a g g g c t t c a g g g a c a g c t t c a c g a c c t t g t t c g g t a a c a g g t c c a t g t g c a g c t t a g a c a t c c c g a a g t c c c t g t c g a a g t g c t g g a a c a a

660 SAVGVVVGDVQMGVQFVAVI RSNPYDDTIDLHANLKNGYY t c t g c t g t t g g g g t a g t c g t c g g t g a t g t c c a g a t g g g c g t t c a g t t t g t t g c c g t a a t a a g a c g a c a a c c c c a t c a g c a g c c a c t a c a g g t c t a c c c g c a a g t c a a a c a a c g g c a t t a t

720 LNLLDHGAVVLFGVLGQVVP KIKKIVPGNDKKSYKTLYNG c t t a a t c t t c t t g a t c a c g g g g c c g t t g t c c t t t t t g g a g t a c t t g g t c a g g t a g t t c c c g a a t t a g a a g a a c t a g t g c c c c g g c a a c a g g a a a a a c c t c a t g a a c c a g t c c a t c a a g g g

780 GFLVVLVQGILLVAVLFHNQ TEEYYKYLPNKEDGYQEMIL g g t t t c c t c g t a g t a c t t g t a c a g g g g a t t c t t c t c g t c g c c g t a c t g t t c c a t a a t c a g c c a a a g g a g c a t c a t g a a c a t g t c c c c t a a g a a g a g c a g c g g c a t g a c a a g g t a t t a g t c

Bsp1286IBanIIAlwNI 840 LQFLVGLGVVVVHQQLFGAL KLKQYTQPDHHYMLLKEPSK c t t c a g t t t c t g g t a g g t c t g g g g g t c g t g g t g g t a c a t c a g c a g c t t t t c g g g g c t c t t g a a g t c a a a g a c c a t c c a g a c c c c c a g c a c c a c c a t g t a g t c g t c g a a a a g c c c c g a g a a

900 VDQLFQLVIVLVVQAVQIVH NILKKLKDNDKDYLGNLNNV g t t g a t c a g c t t t t t c a g c t t g t c a t t g t c c t t g t c g t a c a g g c c g t t c a g a t t g t t c a c c a a c t a g t c g a a a a a g t c g a a c a g t a a c a g g a a c a g c a t g t c c g g c a a g t c t a a c a a g t g

960 DQGVALVVLPGGVQGVVNQL ILTNGKDDKRTSYLTDNILE g a t c a g g g t g t t g c c c t t g t c g t c c t t c c g g g t g g a g t a c a g g g t g t c g t t a a t c a g c t c c t a g t c c c a c a a c g g g a a c a g c a g g a a g g c c c a c c t c a t g t c c c a c a g c a a t t a g t c g a g

End (1018) DraIIIPflMI 3ʹ 5ʹ 1018 SIRLLVHPVAVLVVLEVLN RNPKKDVRHSYKYDKFDKI t c t a t t a g g c t t c t t g t c c a c c c g g t g g c t g t a c t t g t a g t c c t t g a a g t c c t t a a t g a g a t a a t c c g a a g a a c a g g t g g g c c a c c g a c a t g a a c a t c a g g a a c t t c a g g a a t t a c

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.