Addgene mOrange2-ER-5 - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: mOrange2-ER-5


Map View

800 600 400 200 End (994) BsaBI * (966) BclI * (961) XbaI * (951) BamHI (939) SmaI (937) ApaI (936) XmaI - TspMI (935) PspOMI (932) SacII (931) KpnI (928) Acc65I (924) ApoI - EcoRI (908) BspEI (887) TatI - BsrGI (879) XcmI (865) SgrAI (860) BsgI (773) PluTI (768) SfoI (766) NarI - BsaHI (765) KasI (764) PvuII (757) BsrBI (637) PspFI (622) PflMI - BseYI (618) BbsI (614) SbfI (534) BsaAI (409) AhdI (373) BlpI (324) BssSI BssSαI (266) FspI - FspAI (242) MscI (209) BsiEI (171) AgeI (166) SfiI - BglI (147) BmtI (105) NheI (101) CMV-F (30 .. 50) EciI (7) Start (0) CMVd2 promoter mOrange2 Kozak sequence mOrange2-ER-5 994 bp

Sequence View

EciIStart (0) 60 CMVd2 promoter C G C A A A T G G G C G G T A G G C G T G CMV-F a a a a t g t c g t a a c a a c t c c g c c c c a t t g a c g c a a a t g g g c g g t a g g c g t g t a c g g t g g a g t t t t a c a g c a t t g t t g a g g c g g g g t a a c t g c g t t t a c c c g c c a t c c g c a c a t g c c a c c t c

BmtINheI 120 CMVd2 promoter MLL * g t c t a t a t a a g c a g a g c t g g t t t a g t g a a c c g t c a g a t c c g c t a g c g c c a c c a t g c t g c t c a g a t a t a t t c g t c t c g a c c a a a t c a c t t g g c a g t c t a g g c g a t c g c g g t g g t a c g a c g a

BsiEIAgeIBglISfiI 180 1 M mOrange2 Kozak sequence SVPLLLGLLGLAVAAPVATM GHRQQEAEEAQGDGCRDGGH a t c c g t g c c g t t g c t g c t c g g c c t c c t c g g c c t g g c c g t c g c c g c a c c g g t c g c c a c c a t t a g g c a c g g c a a c g a c g a g c c g g a g g a g c c g g a c c g g c a g c g g c g t g g c c a g c g g t g g t a

MscI 240 5 10 15 20 VSKGEENNMAIIKEFMRFKV mOrange2 Kozak sequence VSKGEENNMAIIKEFMRFKV HALALLIVHGDDLLEHAELH g g t g a g c a a g g g c g a g g a g a a t a a c a t g g c c a t c a t c a a g g a g t t c a t g c g c t t c a a g g t c c a c t c g t t c c c g c t c c t c t t a t t g t a c c g g t a g t a g t t c c t c a a g t a c g c g a a g t t c c a

BssSαIBssSIFspAIFspI 300 25 30 35 40 RMEGSVNGHEFEIEGEGEGR mOrange2 RMEGSVNGHEFEIEGEGEGR AHLAGHVAVLELDLALALAA g c g c a t g g a g g g c t c c g t g a a c g g c c a c g a g t t c g a g a t c g a g g g c g a g g g c g a g g g c c g c g c g t a c c t c c c g a g g c a c t t g c c g g t g c t c a a g c t c t a g c t c c c g c t c c c g c t c c c g g c

BlpI 360 45 50 55 60 PYEGFQTAKLKVTKGGPLPF mOrange2 PYEGFQTAKLKVTKGGPLPF GVLAKLGSLQLHGLTAGQGE c c c c t a c g a g g g c t t t c a g a c c g c t a a g c t g a a g g t g a c c a a g g g t g g c c c c c t g c c c t t g g g g a t g c t c c c g a a a g t c t g g c g a t t c g a c t t c c a c t g g t t c c c a c c g g g g g a c g g g a a

BsaAIAhdI 420 65 70 75 80 AWDILSPHFTYGSKAYVKHP mOrange2 AWDILSPHFTYGSKAYVKHP GPVDQGRMEGVAGLGVHLVG c g c c t g g g a c a t c c t g t c c c c t c a t t t c a c c t a c g g c t c c a a g g c c t a c g t g a a g c a c c c g c g g a c c c t g t a g g a c a g g g g a g t a a a g t g g a t g c c g a g g t t c c g g a t g c a c t t c g t g g g

480 85 90 95 100 ADIPDYFKLSFPEGFKWERV mOrange2 ADIPDYFKLSFPEGFKWERV GVDGVVELQGEGLAELPLAH c g c c g a c a t c c c c g a c t a c t t c a a g c t g t c c t t c c c c g a g g g c t t c a a g t g g g a g c g c g t g c g g c t g t a g g g g c t g a t g a a g t t c g a c a g g a a g g g g c t c c c g a a g t t c a c c c t c g c g c a

SbfI 540 105 110 115 120 MNYEDGGVVTVTQDSSLQDG mOrange2 MNYEDGGVVTVTQDSSLQDG HVVLVAAHHGHGLVGGQLVA g a t g a a c t a c g a g g a c g g c g g c g t g g t g a c c g t g a c c c a g g a c t c c t c c c t g c a g g a c g g c t a c t t g a t g c t c c t g c c g c c g c a c c a c t g g c a c t g g g t c c t g a g g a g g g a c g t c c t g c c

600 125 130 135 140 EFIYKVKLRGTNFPSDGPVM mOrange2 EFIYKVKLRGTNFPSDGPVM LEDVLHLQAAGVEGGVAGHH c g a g t t c a t c t a c a a g g t g a a g c t g c g c g g c a c c a a c t t c c c c t c c g a c g g c c c c g t g a t g c t c a a g t a g a t g t t c c a c t t c g a c g c g c c g t g g t t g a a g g g g a g g c t g c c g g g g c a c t a

BsrBIBbsIBseYIPflMIPspFI 660 145 150 155 160 QKKTMGWEASSERMYPEDGA mOrange2 QKKTMGWEASSERMYPEDGA LLLGHAPLGGGLPHVGLVTG g c a g a a g a a g a c c a t g g g c t g g g a g g c c t c c t c c g a g c g g a t g t a c c c c g a g g a c g g t g c c g t c t t c t t c t g g t a c c c g a c c c t c c g g a g g a g g c t c g c c t a c a t g g g g c t c c t g c c a c g

720 165 170 175 180 LKGKIKMRLKLKDGGHYTSE mOrange2 LKGKIKMRLKLKDGGHYTSE QLALDLHPQLQLVAAVVGGL c c t g a a g g g c a a g a t c a a g a t g a g g c t g a a g c t g a a g g a c g g c g g c c a c t a c a c c t c c g a g g a c t t c c c g t t c t a g t t c t a c t c c g a c t t c g a c t t c c t g c c g c c g g t g a t g t g g a g g c t

BsgIPvuIIKasIBsaHINarISfoIPluTI 780 185 190 195 200 VKTTYKAKKPVQLPGAYIVD mOrange2 VKTTYKAKKPVQLPGAYIVD DLGGVLGLLGHLQGAGVDDV g g t c a a g a c c a c c t a c a a g g c c a a g a a g c c c g t g c a g c t g c c c g g c g c c t a c a t c g t c g a c c a g t t c t g g t g g a t g t t c c g g t t c t t c g g g c a c g t c g a c g g g c c g c g g a t g t a g c a g c t

840 205 210 215 220 IKLDITSHNEDYTIVEQYER mOrange2 IKLDITSHNEDYTIVEQYER DLQVDGGVVLVVGDHFLVFA c a t c a a g t t g g a c a t c a c c t c c c a c a a c g a g g a c t a c a c c a t c g t g g a a c a g t a c g a a c g g t a g t t c a a c c t g t a g t g g a g g g t g t t g c t c c t g a t g t g g t a g c a c c t t g t c a t g c t t g c

BspEIBsrGITatIXcmISgrAI 900 225 230 235 AEGRHSTGGMDELYK SGKDE mOrange2 AEGRHSTGGMDELYKSGKDE GLAAVGGAAHVLQVLGSLVL c g c c g a g g g c c g c c a c t c c a c c g g c g g c a t g g a c g a g c t g t a c a a g t c c g g a a a g g a c g a g c g g c t c c c g g c g g t g a g g t g g c c g c c g t a c c t g c t c g a c a t g t t c a g g c c t t t c c t g c t

XbaI*Acc65IKpnISacIIPspOMITspMIXmaIApaISmaIBamHIEcoRIApoI 960 L* L* QLFEATSPVAPGPDVPDLYS g c t g t a a g a a t t c t g c a g t c g a c g g t a c c g c g g g c c c g g g a t c c a c c g g a t c t a g a t a a c c g a c a t t c t t a a g a c g t c a g c t g c c a t g g c g c c c g g g c c c t a g g t g g c c t a g a t c t a t t g

End (994) BsaBI*BclI* 994 IMILWVVNTST t g a t c a t a a t c a g c c a t a c c a c a t t t g t a g a g g t a c t a g t a t t a g t c g g t a t g g t g t a a a c a t c t c c a

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.