Addgene pcDNA3.1-Clover-mRuby2 Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pcDNA3.1-Clover-mRuby2 Sequencing Result

Map View

800 600 400 200 End (903) BsaBI * (892) BsrGI (829) EGFP-C (773 .. 794) AclI (631) NmeAIII (475) PfoI * (400) BssSI - BssSαI (300) BsrFI (270) BtgZI (241) SacII (212) MspA1I (211) BtgI (209) EGFP-N (165 .. 186) BseRI (150) ApoI - EcoRI (111) BstXI (107) SpeI (86) SacI - BanII - BsiHKAI (78) Eco53kI (76) HindIII (62) BsaI (49) SfcI (48) T7 (36 .. 55) AseI (35) BtsI - BtsαI (11) Start (0) T7 promoter Clover Xpress™ tag pcDNA3.1-Clover-mRuby2 903 bp

Sequence View

SfcIBsaIAseIBtsαIBtsIStart (0) 5ʹ 3ʹ 60 T7 promoter T A A T A C G A C T C A C T A T A G G G T7 LENPLLTGLSKLIRLTIGRP a c t a g a g a a c c c a c t g c t t a c t g g c t t a t c g a a a t t a a t a c g a c t c a c t a t a g g g a g a c c t g a t c t c t t g g g t g a c g a a t g a c c g a a t a g c t t t a a t t a t g c t g a g t g a t a t c c c t c t g g

BstXIEcoRIApoISpeIEco53kIBsiHKAIBanIISacIHindIII 120 Clover KLGTELGSTSNGRQCAGIRH *YRGGTHQFEA c a a g c t t g g t a c c g a g c t c g g a t c c a c t a g t a a c g g c c g c c a g t g t g c t g g a a t t c g g c a g t t c g a a c c a t g g c t c g a g c c t a g g t g a t c a t t g c c g g c g g t c a c a c g a c c t t a a g c c g t

BseRI 180 1 M 1a V 5 10 15 SKGEELFTGVVPILVELD Clover G A C C A G C T C G A C C T G C EGFP-N GEQGRGAVHRGGAHPGRAGR MVSKGEELFTGVVPILVELD HHALALLQEGPHHGDQDLQV t g g t g a g c a a g g g c g a g g a g c t g t t c a c c g g g g t g g t g c c c a t c c t g g t c g a g c t g g a c g a c c a c t c g t t c c c g c t c c t c g a c a a g t g g c c c c a c c a c g g g t a g g a c c a g c t c g a c c t g c

BtgIMspA1ISacII 240 20 25 30 35 GDVNGHKFSVRGEGEGDATN Clover C G C T G C EGFP-N RRKRPQVQRPRRGRGRCHQR GDVNGHKFSVRGEGEGDATN AVYVAVLEADAALALAIGGV g c g a c g t a a a c g g c c a c a a g t t c a g c g t c c g c g g c g a g g g c g a g g g c g a t g c c a c c a a c g c g c t g c a t t t g c c g g t g t t c a a g t c g c a g g c g c c g c t c c c g c t c c c g c t a c g g t g g t t g c

BsrFIBtgZI 300 40 45 50 55 GKLTLKFICTTGKLPVPWPT Clover QADPEVHLHHRQAARALAHP GKLTLKFICTTGKLPVPWPT ALQGQLEDAGGALQGHGPGG g c a a g c t g a c c c t g a a g t t c a t c t g c a c c a c c g g c a a g c t g c c c g t g c c c t g g c c c a c c c c g t t c g a c t g g g a c t t c a a g t a g a c g t g g t g g c c g t t c g a c g g g c a c g g g a c c g g g t g g g

BssSαIBssSI 360 60 65 70 75 LVTTFGYGVACFSRYPDHMK Clover RDHLRLRRGLLQPLPRPHEA LVTTFGYGVACFSRYPDHMK EHGGEAVAHGAEAAVGVVHL t c g t g a c c a c c t t c g g c t a c g g c g t g g c c t g c t t c a g c c g c t a c c c c g a c c a c a t g a a g c a g c a c t g g t g g a a g c c g a t g c c g c a c c g g a c g a a g t c g g c g a t g g g g c t g g t g t a c t t c g

PfoI* 420 80 85 90 95 QHDFFKSAMPEGYVQERTIS Clover ARLLQVRHARRLRPGAHHLF QHDFFKSAMPEGYVQERTIS LVVEELGGHGFAVDLLAGDR a g c a c g a c t t c t t c a a g t c c g c c a t g c c c g a a g g c t a c g t c c a g g a g c g c a c c a t c t c t t t c g t g c t g a a g a a g t t c a g g c g g t a c g g g c t t c c g a t g c a g g t c c t c g c g t g g t a g a g a a

NmeAIII 480 100 105 110 115 FKDDGTYKTRAEVKFEGDTL Clover QGRRYLQDPRRGEVRGRHPG FKDDGTYKTRAEVKFEGDTL ELVVTGVLGAGLHLELAVGQ t c a a g g a c g a c g g t a c c t a c a a g a c c c g c g c c g a g g t g a a g t t c g a g g g c g a c a c c c t g g a g t t c c t g c t g c c a t g g a t g t t c t g g g c g c g g c t c c a c t t c a a g c t c c c g c t g t g g g a c c

540 120 125 130 135 VNRIELKGIDFKEDGNILGH Clover EPHRAEGHRLQGGRQHPGAQ VNRIELKGIDFKEDGNILGH HVADLQLADVELLVAVDQPV t g a a c c g c a t c g a g c t g a a g g g c a t c g a c t t c a a g g a g g a c g g c a a c a t c c t g g g g c a c a a c t t g g c g t a g c t c g a c t t c c c g t a g c t g a a g t t c c t c c t g c c g t t g t a g g a c c c c g t g t

600 140 145 150 155 KLEYNFNSHNVYITADKQKN Clover AGVQLQQPQRLYHGRQAEER KLEYNFNSHNVYITADKQKN LQLVVEVAVVDIDRGVLLLV a g c t g g a g t a c a a c t t c a a c a g c c a c a a c g t c t a t a t c a c g g c c g a c a a g c a g a a g a a c g t c g a c c t c a t g t t g a a g t t g t c g g t g t t g c a g a t a t a g t g c c g g c t g t t c g t c t t c t t g c

AclI 660 160 165 170 175 GIKANFKIRHNVEDGSVQLA Clover HQG* GIKANFKIRHNVEDGSVQLA ADLSVELDAVVNLVAAHLEG g c a t c a a g g c t a a c t t c a a g a t c c g c c a c a a c g t t g a g g a c g g c a g c g t g c a g c t c g c c g c g t a g t t c c g a t t g a a g t t c t a g g c g g t g t t g c a a c t c c t g c c g t c g c a c g t c g a g c g g c

720 180 185 190 195 DHYQQNTPIGDGPVLLPDNH Clover DHYQQNTPIGDGPVLLPDNH VVVLLVGGDAVAGHQQGVVV a c c a c t a c c a g c a g a a c a c c c c c a t c g g c g a c g g c c c c g t g c t g c t g c c c g a c a a c c a c t t g g t g a t g g t c g t c t t g t g g g g g t a g c c g c t g c c g g g g c a c g a c g a c g g g c t g t t g g t g a

780 200 205 210 215 YLSHQSALSKDPNEKRDHMV Clover C A T G G T C C EGFP-C YLSHQSALSKDPNEKRDHMV VQAMLGGQAFVGVLLAIVHD a c c t g a g c c a t c a g t c c g c c c t g a g c a a a g a c c c c a a c g a g a a g c g c g a t c a c a t g g t c c t g g a c t c g g t a g t c a g g c g g g a c t c g t t t c t g g g g t t g c t c t t c g c g c t a g t g t a c c a g g

BsrGI 840 220 225 230 235 LLEFVTAAGITHGMDELYK S Clover T G C T G G A G T T C G T G EGFP-C LLEFVTAAGITHGMDELYKS QQLEHGGGPNCMAHVLQVLR t g c t g g a g t t c g t g a c c g c c g c c g g g a t t a c a c a t g g c a t g g a c g a g c t g t a c a a g t c t a a c g a c c t c a a g c a c t g g c g g c g g c c c t a a t g t g t a c c g t a c c t g c t c g a c a t g t t c a g a t

BsaBI* 900 (in frame with Clover) SMTGGQQMGR 1 DLY 5 enterokinase site DDDDK DP Xpress™ tag SMTGGQQMGRDLYDDDDKDP AHSTSLLHTPIQVVIVILIR g c a t g a c t g g t g g a c a g c a a a t g g g t c g g g a t c t g t a c g a c g a t g a c g a t a a g g a t c c g a c g t a c t g a c c a c c t g t c g t t t a c c c a g c c c t a g a c a t g c t g c t a c t g c t a t t c c t a g g c t

End (903) 3ʹ 5ʹ 903 M M H t g g a c 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.