Addgene SP-dCas9-VPR Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: SP-dCas9-VPR Sequencing Result


Map View

600 400 200 End (796) StuI (792) PshAI (776) AcuI (775) BanII - Bsp1286I (719) MspA1I (708) Bsu36I (663) NaeI (659) NgoMIV (657) BmgBI (641) AflIII (638) BpmI (605) PfoI * (582) BtgI - NcoI (573) BbvCI - Bpu10I (480) AlwNI (479) HaeII (467) BtsI - BtsαI - MmeI (455) AvaI - BsoBI (447) EcoNI (432) Esp3I - BsmBI (417) MscI (336) EciI (329) MslI (297) SmlI (273) BpuEI (258) TaqII (252) BciVI (219) NspI SphI (182) BstAPI (179) NsiI (175) BsrGI (110) EcoRV (98) XbaI (89) BsrBI (87) BfuAI - BspMI (86) BsiEI (85) NotI - EagI (82) KpnI (78) Acc65I (74) Start (0) attB2 Rta AD SP-dCas9-VPR 796 bp

Sequence View

Start (0) 60 a c c g g t a g g g a t c g a a c c c t t t g t c t g c t c g a a g c a t t a a c c c t c a c t a a a g g g a a g c g g t g g c c a t c c c t a g c t t g g g a a a c a g a c g a g c t t c g t a a t t g g g a g t g a t t t c c c t t c g c c

BsrGIEcoRVAcc65IKpnIEagINotIBsiEIBspMIBfuAIBsrBIXbaI 120 attB2 c c t t a g t t a t t c a g g t a c c t g c g g c c g c t c t a g a t g a t a t c a a c c a c t t t g t a c a a g a a a g g a a t c a a t a a g t c c a t g g a c g c c g g c g a g a t c t a c t a t a g t t g g t g a a a c a t g t t c t t t

BstAPINsiI 180 * 190 185 180 175 FLSTDFISLGTSIHMA attB2 Rta AD *FLSTDFISLGTSIHMA g c t g g g t t t c a a a a c a g a g a t g t g t c g a a g a t g g a c a g t c c t g t g c t g a t a t g c a t g g c a c g a c c c a a a g t t t t g t c t c t a c a c a g c t t c t a c c t g t c a g g a c a c g a c t a t a c g t a c c g t

BciVISphINspI 240 170 165 160 155 HLLCEDNLFTDLIENLEPTL Rta AD HLLCEDNLFTDLIENLEPTL t g c a a g a g g c a c t c g t c g t t c a g g a a g g t a t c c a g a a t c t c g t t c a a t t c c g g g g t c a g g a c g t t c t c c g t g a g c a g c a a g t c c t t c c a t a g g t c t t a g a g c a a g t t a a g g c c c c a g t c c

MslISmlIBpuEITaqII 300 150 145 140 135 PSDLNLDETMSELTTTLEDL Rta AD PSDLNLDETMSELTTTLEDL g g t g a g t c c a g g t t c a g a t c c t c g g t c a t g g a c t c a a g t g t g g t t g t c a g c t c a t c c a g a c c a c t c a g g t c c a a g t c t a g g a g c c a g t a c c t g a g t t c a c a c c a a c a g t c g a g t a g g t c t

MscIEciI 360 130 125 120 115 HGRPPPHSLDMQGCIAAEEK Rta AD HGRPPPHSLDMQGCIAAEEK t g g c c c c t t g g g g g c g g a t g g g a a a g g t c c a t t t g g c c a c a g a t t g c a g c c t c t t c c t t c a c c g g g g a a c c c c c g c c t a c c c t t t c c a g g t a a a c c g g t g t c t a a c g t c g g a g a a g g a a g

BsmBIEsp3I 420 110 105 100 95 QPIVTDAMERLAKVAQSTEE Rta AD QPIVTDAMERLAKVAQSTEE t g g g g a a t c a c a g t a t c g g c c a t c t c c c g a a g g g c t t t g a c a g c c t g g c t c g t c t c t t c a a c c c c t t a g t g t c a t a g c c g g t a g a g g g c t t c c c g a a a c t g t c g g a c c g a g c a g a g a a g t

AlwNIHaeIIMmeIBtsαIBtsIBsoBIAvaIEcoNI 480 90 85 80 75 DPDELLHSAEPTVAPAPDLP Rta AD DPDELLHSAEPTVAPAPDLP t c g g g a t c c t c c a a c a g g t g a c t g g c c t c g g g a g t c a c t g c g g g c g c t g g a t c c a g t g g c a g c c c t a g g a g g t t g t c c a c t g a c c g g a g c c c t c a g t g a c g c c c g c g a c c t a g g t c a c c g

Bpu10IBbvCI 540 70 65 60 55 QPVPAPTLSGVPEHVPGTPT Rta AD QPVPAPTLSGVPEHVPGTPT t g a g g g a c t g g t g c c g g g g t c a g t g a c c c g a c t g g c t c a t g t a c t g g a c c g g t t g g t g t t a c t c c c t g a c c a c g g c c c c a g t c a c t g g g c t g a c c g a g t a c a t g a c c t g g c c a a c c a c a a

PfoI*NcoIBtgI 600 50 45 40 35 PALSAPLPRNAWPSGPPHFP Rta AD PALSAPLPRNAWPSGPPHFP g g t g c g a g g c t g g c g g g g a g t g g g c g g t t g g c c c a t g g a c t t c c t g g a g g a t g a a a t g g c c c a c g c t c c g a c c g c c c c t c a c c c g c c a a c c g g g t a c c t g a a g g a c c t c c t a c t t t a c c g

NgoMIVNaeIAflIIIBmgBIBpmI 660 30 25 20 15 RIRKPQCVERGEFVDSIASG Rta AD RIRKPQCVERGEFVDSIASG c g g a t t c g t t t t g g c t g g c a c a c c t c g c g g c c c t c a a a c a c g t c a c t a a t a g c g g a g c c g g c c t a a g c a a a a c c g a c c g t g t g g a g c g c c g g g a g t t t g t g c a g t g a t t a t c g c c t c g g c

Bsp1286IBanIIMspA1IBsu36I 720 10 5 1 AEPKPLFMGERSDR Rta AD AEPKPLFMGERSDRSGSGSG g c c t c a g g c t t c g g c a a a a a c a t c c c t t c c c t g g a a t c c c g g c t g c c g c t g c c a g a g c c c c g g a g t c c g a a g c c g t t t t t g t a g g g a a g g g a c c t t a g g g c c g a c g g c g a c g g t c t c g g g

AcuIPshAI 780 LLASFDMDAISSFDEDGSLL a g c a a g g c t g a g a a a t c c a t a t c g g c g a t a g a g c t g a a g t c c t c g t c g c c a g a c a g c a g t t c g t t c c g a c t c t t t a g g t a t a g c c g c t a t c t c g a c t t c a g g a g c a g c g g t c t g t c g t c a

End (796) StuI 796 GNPLG c c a t t a g g c a g g c c t g g g t a a t c c g t c c g g 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.