Addgene pRK5-HA-YFP-raptor Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pRK5-HA-YFP-raptor Sequencing Result

Map View

800 600 400 200 End (895) BglII (885) BspEI (876) BsrGI (868) EGFP-C (812 .. 833) Bpu10I (762) EXFP-R (465 .. 484) PfoI * (439) BtsI - BtsαI (372) PstI (367) SfcI (363) BssSI - BssSαI (339) BtgZI (280) EGFP-N (204 .. 225) BanI (194) BseRI (189) BsiEI (151) AgeI (146) BsrDI (134) EarI (69) BsaI (66) AhdI (58) TaqII (48) ApoI - EcoRI (40) MmeI (38) ClaI - BspDI (34) Start (0) Kozak sequence HA mEYFP Kozak sequence pRK5-HA-YFP-raptor 895 bp

Sequence View

AhdITaqIIBspDIClaIMmeIEcoRIApoIStart (0) 5ʹ 3ʹ 60 VGLDLQVETRDISNGFRCD t c c a c t c c c a g g t c c a a c t g c a c c t c g g t t c t a t c g a t t g a a t t c c c g a a c c g a c a g t c g a g g t g a g g g t c c a g g t t g a c g t g g a g c c a a g a t a g c t a a c t t a a g g g c t t g g c t g t c a g c

BsaIEarI 120 1 5 YPYDVPDY Kozak sequence HA MGYPYDVPDY TEEGLGNAGGHAVGIIHRVV g t c t c t t c a c c a a g g c c a t t c g c g c c a c c a t g g g c t a c c c c t a t g a t g t g c c t g a c t a c g c a g a g a a g t g g t t c c g g t a a g c g c g g t g g t a c c c g a t g g g g a t a c t a c a c g g a c t g a t g c

BsiEIAgeIBsrDI 180 A (in frame with HA) DRNGGGGGPVAT 1 M 1a V 5 SKGEE HA mEYFP Kozak sequence ADRNGGGGGPVATMVSKGEE CIAITTTTSRDGGHHALALL c a g a t c g c a a t g g t g g t g g t g g t g g a c c g g t c g c c a c c a t g g t g a g c a a g g g c g a g g a g c g t c t a g c g t t a c c a c c a c c a c c a c c t g g c c a g c g g t g g t a c c a c t c g t t c c c g c t c c t c g

BanIBseRI 240 10 15 20 25 LFTGVVPILVELDGDVNGHK mEYFP G A C C A G C T C G A C C T G C C G C T G C EGFP-N LFTGVVPILVELDGDVNGHK QEGPHHGDQDLQVAVYVAVL 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 g c g a c g t a a a c g g c c a c a a g t 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 c g c t g c a t t t g c c g g t g t t c a

BtgZI 300 30 35 40 45 FSVSGEGEGDATYGKLTLKF mEYFP FSVSGEGEGDATYGKLTLKF EAHGALALAIGGVALQGQLE t c a g c g t g t c 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 t a c g g c a a g c t g a c c c t g a a g t t c a a g t c g c a c a g 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 a t g c c g t t c g a c t g g g a c t t c a a g t

BssSαIBssSI 360 50 55 60 65 ICTTGKLPVPWPTLVTTFGY mEYFP ICTTGKLPVPWPTLVTTFGY DAGGALQGHGPGGEHGGEAV 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 t c g t g a c c a c c t t c g g c t a c g 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 a g c a c t g g t g g a a g c c g a t g c

BtsαIBtsIPstISfcI 420 70 75 80 85 GLQCFARYPDHMKQHDFFKS mEYFP GLQCFARYPDHMKQHDFFKS AQLAEGAVGVVHLLVVEELG g c c t g c a g t g c t t c g c 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 g a c t t c t t c a a g t c c g c g g a c g t c a c g a a g c g g g c g a t g g g g c t g g t g t a c t t c g t c g t g c t g a a g a a g t t c a g g c

PfoI* 480 90 95 100 105 AMPEGYVQERTIFFKDDGNY mEYFP C T G C T G C C G T T G A T G T EXFP-R AMPEGYVQERTIFFKDDGNY GHGFAVDLLAGDEELVVAVV 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 t c t t c a a g g a c g a c g g c a a c t a c a 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 a g a a g t t c c t g c t g c c g t t g a t g t

540 110 115 120 125 KTRAEVKFEGDTLVNRIELK mEYFP T C T G EXFP-R KTRAEVKFEGDTLVNRIELK LGAGLHLELAVGQHVADLQL 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 t g a a c c g c a t c g a g c t g a a g g 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 a c t t g g c g t a g c t c g a c t t c c

600 130 135 140 145 GIDFKEDGNILGHKLEYNYN mEYFP GIDFKEDGNILGHKLEYNYN ADVELLVAVDQPVLQLVVVV 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 g c t g g a g t a c a a c t a c a a c a 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 t c g a c c t c a t g t t g a t g t t g t

660 150 155 160 165 SHNVYIMADKQKNGIKVNFK mEYFP SHNVYIMADKQKNGIKVNFK AVVDIDHGVLLLVADLHVEL g c c a c a a c g t c t a t a t c a t g g c c g a c a a g c a g a a g a a c g g c a t c a a g g t g a a c t t c a a g a c g g t g t t g c a g a t a t a g t a c c g g c t g t t c g t c t t c t t g c c g t a g t t c c a c t t g a a g t t c t

720 170 175 180 185 IRHNIEDGSVQLADHYQQNT mEYFP IRHNIEDGSVQLADHYQQNT DAVVDLVAAHLEGVVVLLVG t c c g c c a c a a c a t c 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 a c c a c t a c c a g c a g a a c a c c c a g g c g g t g t t g t a g 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 t g g t g a t g g t c g t c t t g t g g g

Bpu10I 780 190 195 200 205 PIGDGPVLLPDNHYLSYQSK mEYFP PIGDGPVLLPDNHYLSYQSK GDAVAGHQQGVVVVQAVLGF 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 a c c t g a g c t a c c a g t c c a a a c 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 t g g a c t c g a t g g t c a g g t t t g

840 210 215 220 225 LSKDPNEKRDHMVLLEFVTA mEYFP C A T G G T C C T G C T G G A G T T C G T G EGFP-C LSKDPNEKRDHMVLLEFVTA QAFVGVLLAIVHDQQLEHGG 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 c t g g a g t t c g t g a c c g c c 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 a c g a c c t c a a g c a c t g g c g g c

End (895) BglIIBspEIBsrGI 3ʹ 5ʹ 895 230 235 AGITLGMDELYK (in frame with mEYFP) SGLRSG mEYFP AGITLGMDELYKSGLRSG GPDSEAHVLQVLGSESRT c c g g g a t c a c t c t 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 c t c a g a t c t g g t g g g g c c c t a g t g a g a 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 g a g t c t a g a c c 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.