Addgene pONL-C1_Rab11a Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pONL-C1_Rab11a Sequencing Result

Map View

1000 750 500 250 End (1069) EcoP15I (992) BsrBI (961) NsiI (921) TsoI (900) DraIII - BstAPI (890) KpnI (709) BanI - Acc65I (705) BsaWI (702) BsaHI (688) TaqII (672) BfuAI - PaqCI - BspMI (668) XcmI (605) BsrFI - SgrAI (420) BglI (388) EciI (347) PpuMI (331) EcoNI (326) StuI (303) EarI (271) PmlI - BsaAI (236) AflIII (235) AhdI (227) CsiI - SexAI * (223) BtsI - BtsαI (174) BaeGI - Bme1580I (141) DrdI (102) NcoI (49) BmtI (43) NheI (39) Start (0) hmKO mKO2 Kozak sequence pONL-C1_Rab11a 1069 bp

Sequence View

NcoIBmtINheIStart (0) 5ʹ 3ʹ 60 1 MVS hmKO 1 MVS mKO2 Kozak sequence MVS YLCLQNLSGDSGSAGGHHA 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 g t g a g c g 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 c a c t c g c

DrdI 120 5 10 15 20 VIKPEMKMRYYMDGSVNGHE hmKO 5 10 15 20 VIKPEMKMRYYMDGSVNGHE mKO2 VIKPEMKMRYYMDGSVNGHE HDLGLHLHPVVHVAGDIPML t g a t c a a g c c c g a g a t g a a g a t g a g g t a c t a c a t g g a c g g c t c c g t c a a t g g g c a t g a g t a c t a g t t c g g g c t c t a c t t c t a c t c c a t g a t g t a c c t g c c g a g g c a g t t a c c c g t a c t c a

BtsαIBtsIBme1580IBaeGI 180 25 30 35 40 FTIEGEGTGRPYEGHQEMTL hmKO 25 30 35 40 FTIEGEGTGRPYEGHQEMTL mKO2 FTIEGEGTGRPYEGHQEMTL ECDLTLACASRVLSMLLHCQ t c a c a a t c g a g g g t g a g g g c a c a g g c a g a c c t t a c g a g g g a c a t c a g g a g a t g a c a c t g c a g t g t t a g c t c c c a c t c c c g t g t c c g t c t g g a a t g c t c c c t g t a g t c c t c t a c t g t g a c g

AflIIIBsaAIPmlISexAI*CsiIAhdI 240 45 50 55 60 RVTMAEGGPMPFAFDLVSHV hmKO 45 50 55 60 RVTMAEGGPMPFAFDLVSHV mKO2 RVTMAEGGPMPFAFDLVSHV ADCHGLAPWHREGEVQHGVH g c g t c a c a a t g g c c g a g g g c g g g c c a a t g c c t t t c g c c t t c g a c c t g g t g t c c c a c g t g t c g c a g t g t t a c c g g c t c c c g c c c g g t t a c g g a a a g c g g a a g c t g g a c c a c a g g g t g c a c a

EarI 300 65 70 75 80 FCYGHRVFTKYPEEIPDYFK hmKO 65 70 75 80 FCYGHRVFTKYPEEIPDYFK mKO2 FCYGHRVFTKYPEEIPDYFK ETVAVSNKSFIWFLDWVIEL t c t g t t a c g g c c a c a g a g t t t t t a c t a a a t a t c c a g a a g a g a t c c c a g a c t a t t t c a a g c a g a c a a t g c c g g t g t c t c a a a a a t g a t t t a t a g g t c t t c t c t a g g g t c t g a t a a a g t t c g

EciIPpuMIEcoNIStuI 360 85 90 95 100 QAFPEGLSWERSLEFEDGGS hmKO 85 90 95 100 QAFPEGLSWERSLEFEDGGS mKO2 QAFPEGLSWERSLEFEDGGS LGKRLAQGPLPGQLELVAAG a g g c c t t t c c t g a g g g c c t g t c c t g g g a g a g g t c c c t g g a g t t c g a g g a c g g c g g c t c c g t c c g g a a a g g a c t c c c g g a c a g g a c c c t c t c c a g g g a c c t c a a g c t c c t g c c g c c g a g g c

BglI 420 105 110 115 120 ASVSAHISLRGNTFYHKSKF hmKO 105 110 115 120 ASVSAHISLRGNTFYHKSKF mKO2 ASVSAHISLRGNTFYHKSKF GGHAGVDAQPAVGEVVLGLE c c t c c g t g a g c g c c c a c a t c a g c c t g a g g g g c a a c a c c t t c t a c c a c a a g t c c a a g t t c a g g a g g c a c t c g c g g g t g t a g t c g g a c t c c c c g t t g t g g a a g a t g g t g t t c a g g t t c a a g t

SgrAIBsrFI 480 125 130 135 140 TGVNFPADGPIMQNQSVDWE hmKO 125 130 135 140 TGVNFPADGPIMQNQSVDWE mKO2 TGVNFPADGPIMQNQSVDWE GAHVEGGVAGDHLVLAHVPL c c g g c g t g a a c t t c c c c g c c g a c g g c c c c a t c a t g c a g a a c c a g a g c g t g g a c t g g g a g c g g c c g c a c t t g a a g g g g c g g c t g c c g g g g t a g t a c g t c t t g g t c t c g c a c c t g a c c c t c g

540 145 150 155 160 PSTEKITASDGVLKGDVTMY hmKO 145 150 155 160 PSTEKITASDGVLKGDVTMY mKO2 PSTEKITASDGVLKGDVTMY GGGLLDGGAVAHQLAVHGHV c c t c c a c c g a g a a g a t c a c c g c c a g c g a c g g c g t g c t g a a g g g c g a c g t g a c c a t g t a c c g g a g g t g g c t c t t c t a g t g g c g g t c g c t g c c g c a c g a c t t c c c g c t g c a c t g g t a c a t g g

600 165 170 175 180 LKLEGGGNHKCQMKTTYKAA hmKO 165 170 175 180 LKLEGGGNHKCQMKTTYKAA mKO2 LKLEGGGNHKCQMKTTYKAA QLQLAAAVVLALHLGGVLGG t g a a g c t g g a g g g c g g c g g c a a c c a c a a g t g c c a g a t g a a g a c c a c c t a c a a g g c c g c c a a c t t c g a c c t c c c g c c g c c g t t g g t g t t c a c g g t c t a c t t c t g g t g g a t g t t c c g g c g g t

XcmI 660 185 190 195 200 KEILEMPGDHYIGHRLVRKT hmKO 185 190 195 200 KEILEMPGDHYIGHRLVRKT mKO2 KEILEMPGDHYIGHRLVRKT LLDQLHGAVVVDAVPQHPLG a g g a g a t c c t g g a g a t g c c c g g c g a c c a c t a c a t c g g c c a c a g g c t g g t g a g g a a g a c c g t c c t c t a g g a c c t c t a c g g g c c g c t g g t g a t g t a g c c g g t g t c c g a c c a c t c c t t c t g g c

BsaWIAcc65IBanIKpnIBsaHIBspMIPaqCIBfuAITaqII 720 205 210 215 EGNITEQVEDAVAHS (in frame with hmKO) GTKVY hmKO 205 210 215 EGNITEQVEDAVAHS (in frame with mKO2) GTKVY mKO2 EGNITEQVEDAVAHSGTKVY LAVDGLLHLVGHGVGTGLHV a g g g c a a c a t c a c c g a g c a g g t g g a g g a c g c c g t g g c c c a c t c c g g t a c c a a g g t g t a c g t c c c g t t g t a g t g g c t c g t c c a c c t c c t g c g g c a c c g g g t g a g g c c a t g g t t c c a c a t g c

780 (in frame with hmKO) DPEQRKRMITGPQWWARCKQ (in frame with mKO2) DPEQRKRMITGPQWWARCKQ DPEQRKRMITGPQWWARCKQ VGLLAFAHDSPRLPPSAALL a c c c c g a g c a a c g c a a a c g c a t g a t c a c t g g g c c t c a g t g g t g g g c t c g c t g c a a g c a a a t g g g g c t c g t t g c g t t t g c g t a c t a g t g a c c c g g a g t c a c c a c c c g a g c g a c g t t c g t t t

840 (in frame with hmKO) MNVLDSFINYYDSEKHAENA (in frame with mKO2) MNVLDSFINYYDSEKHAENA MNVLDSFINYYDSEKHAENA HVHQVGEDVVIIGLLVGLVG t g a a c g t g c t g g a c t c c t t c a t c a a c t a c t a t g a t t c c g a g a a g c a c g c c g a g a a c g c c g a c t t g c a c g a c c t g a g g a a g t a g t t g a t g a t a c t a a g g c t c t t c g t g c g g c t c t t g c g g c

TsoIBstAPIDraIII 900 (in frame with hmKO) VIFLHGNATSSYLWRHVVPH (in frame with mKO2) VIFLHGNATSSYLWRHVVPH VIFLHGNATSSYLWRHVVPH HNKQM t g a t t t t t c t g c a t g g t a a c g c t a c c t c c a g c t a c c t g t g g a g g c a c g t c g t g c c t c a c a a c t a a a a a g a c g t a c c a t t g c g a t g g a g g t c g a t g g a c a c c t c c g t g c a g c a c g g a g t g t

NsiI 960 (in frame with hmKO) IEPVARCIIPDLIGMGKSGK (in frame with mKO2) IEPVARCIIPDLIGMGKSGK IEPVARCIIPDLIGMGKSGK t c g a g c c c g t g g c t a g a t g c a t c a t c c c t g a t c t g a t c g g a a t g g g t a a g t c c g g c a a g a a g c t c g g g c a c c g a t c t a c g t a g t a g g g a c t a g a c t a g c c t t a c c c a t t c a g g c c g t t c t

EcoP15IBsrBI 1020 (in frame with hmKO) SGNGSYRLLDHYKYLTAWFE (in frame with mKO2) SGNGSYRLLDHYKYLTAWFE SGNGSYRLLDHYKYLTAWFE g c g g g a a t g g c t c a t a t c g c c t c c t g g a t c a c t a c a a g t a c c t c a c c g c t t g g t t c g a g c c g c c c t t a c c g a g t a t a g c g g a g g a c c t a g t g a t g t t c a t g g a g t g g c g a a c c a a g c t c g

End (1069) 3ʹ 5ʹ 1069 (in frame with hmKO) LLNLPKKIIFVGHDWG (in frame with mKO2) LLNLPKKIIFVGHDWG LLNLPKKIIFVGHDWG t g c t g a a c c t t c c a a a g a a a a t c a t c t t t g t g g g c c a c g a c t g g g g g a g a c g a c t t g g a a g g t t t c t t t t a g t a g a a a c a c c c g g t g c t g a c c c c c t 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.