Addgene pBabe.puro.CDK8.flag Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pBabe.puro.CDK8.flag Sequencing Result

Map View

800 600 400 200 End (936) BstZ17I (890) BsaAI - SnaBI (887) AseI (862) PvuII - MspA1I (780) SpeI (754) HincII (736) SalI (734) BanII - Bsp1286I (630) KpnI (624) BanI - Acc65I (620) BamHI (597) BsaBI * (596) EcoNI (521) Bpu10I (518) SphI (457) AvaI - BsoBI (398) AflII - SmlI (244) NmeAIII (135) BmgBI (129) EaeI (108) BlpI (52) BglII (22) Start (0) enterokinase site pBabe.puro.CDK8.flag 936 bp

Sequence View

BlpIBglIIStart (0) 5ʹ 3ʹ 60 1 5 DDDDK (in frame with enterokinase site) RSMDYDFKVKLSS enterokinase site YKDDDDKRSMDYDFKVKLSS t a c a a a g a c g a t g a c g a c a a g a g a t c t a t g g a c t a t g a c t t t a a a g t g a a g c t g a g c a g c a t g t t t c t g c t a c t g c t g t t c t c t a g a t a c c t g a t a c t g a a a t t t c a c t t c g a c t c g t c g

EaeI 120 (in frame with enterokinase site) ERERVEDLFEYEGCKVGRGT ERERVEDLFEYEGCKVGRGT g a g c g g g a g c g g g t c g a g g a c c t g t t t g a a t a c g a g g g c t g c a a a g t t g g c c g a g g c a c t c t c g c c c t c g c c c a g c t c c t g g a c a a a c t t a t g c t c c c g a c g t t t c a a c c g g c t c c g t g a

NmeAIIIBmgBI 180 (in frame with enterokinase site) YGHVYKAKRKDGKDDKDYAL YGHVYKAKRKDGKDDKDYAL t a t g g t c a c g t c t a c a a a g c c a a g a g g a a a g a t g g g a a g g a t g a t a a a g a c t a t g c t t t a a t a c c a g t g c a g a t g t t t c g g t t c t c c t t t c t a c c c t t c c t a c t a t t t c t g a t a c g a a a t

240 (in frame with enterokinase site) KQIEGTGISMSACREIALLR KQIEGTGISMSACREIALLR a a a c a a a t a g a a g g a a c t g g g a t c t c t a t g t c g g c a t g t a g a g a a a t a g c a t t a c t t c g a t t t g t t t a t c t t c c t t g a c c c t a g a g a t a c a g c c g t a c a t c t c t t t a t c g t a a t g a a g c t

SmlIAflII 300 (in frame with enterokinase site) ELKHPNVISLQKVFLSHADR ELKHPNVISLQKVFLSHADR g a g c t t a a g c a t c c a a a c g t c a t t t c t c t t c a a a a g g t g t t t c t g t c t c a t g c t g a t a g g c t c g a a t t c g t a g g t t t g c a g t a a a g a g a a g t t t t c c a c a a a g a c a g a g t a c g a c t a t c c

360 (in frame with enterokinase site) KVWLLFDYAEHDLWHIIKFH KVWLLFDYAEHDLWHIIKFH a a g g t g t g g c t t c t g t t t g a c t a t g c t g a a c a t g a c c t c t g g c a t a t a a t c a a g t t t c a c t t c c a c a c c g a a g a c a a a c t g a t a c g a c t t g t a c t g g a g a c c g t a t a t t a g t t c a a a g t g

BsoBIAvaI 420 (in frame with enterokinase site) RASKANKKPVQLPRGMVKSL RASKANKKPVQLPRGMVKSL a g a g c t t c t a a a g c a a a c a a g a a g c c a g t t c a g t t a c c t c g g g g a a t g g t g a a g t c a c t a t c t c g a a g a t t t c g t t t g t t c t t c g g t c a a g t c a a t g g a g c c c c t t a c c a c t t c a g t g a t

SphI 480 (in frame with enterokinase site) LYQILDGIHYLHANWVLHRD LYQILDGIHYLHANWVLHRD t t a t a t c a g a t c c t a g a t g g t a t t c a c t a c c t g c a t g c t a a c t g g g t g t t g c a c a g a g a t a a t a t a g t c t a g g a t c t a c c a t a a g t g a t g g a c g t a c g a t t g a c c c a c a a c g t g t c t c t a

Bpu10IEcoNI 540 (in frame with enterokinase site) LKPANILVMGEGPERGRVKI LKPANILVMGEGPERGRVKI t t g a a a c c t g c t a a t a t t t t a g t t a t g g g t g a a g g t c c t g a g c g a g g a a g a g t a a a a a t t a a c t t t g g a c g a t t a t a a a a t c a a t a c c c a c t t c c a g g a c t c g c t c c t t c t c a t t t t t a a

BsaBI*BamHI 600 (in frame with enterokinase site) ADMGFARLFNSPLKPLADLD ADMGFARLFNSPLKPLADLD g c t g a c a t g g g c t t t g c c c g a t t a t t t a a t t c a c c t t t g a a g c c t t t a g c a g a t t t g g a t c g a c t g t a c c c g a a a c g g g c t a a t a a a t t a a g t g g a a a c t t c g g a a a t c g t c t a a a c c t a

Bsp1286IBanIIAcc65IBanIKpnI 660 (in frame with enterokinase site) PVVVTFWYRAPELLLGARHY PVVVTFWYRAPELLLGARHY c c a g t g g t t g t t a c a t t c t g g t a c c g a g c c c c t g a a c t a c t t c t t g g a g c a a g g c a t t a t g g t c a c c a a c a a t g t a a g a c c a t g g c t c g g g g a c t t g a t g a a g a a c c t c g t t c c g t a a t a

720 (in frame with enterokinase site) TKAIDIWAIGCIFAELLTSE TKAIDIWAIGCIFAELLTSE a c c a a a g c t a t t g a t a t t t g g g c t a t a g g g t g t a t a t t t g c a g a a c t a c t a a c g t c a g a a t g g t t t c g a t a a c t a t a a a c c c g a t a t c c c a c a t a t a a a c g t c t t g a t g a t t g c a g t c t t

MspA1IPvuIISpeISalIHincII 780 (in frame with enterokinase site) PIFHCRQEDIKTSNPYHHDQ PIFHCRQEDIKTSNPYHHDQ c c a a t a t t t c a c t g t c g a c a a g a g g a c a t c a a a a c t a g t a a t c c t t a t c a c c a t g a c c a g g g t t a t a a a g t g a c a g c t g t t c t c c t g t a g t t t t g a t c a t t a g g a a t a g t g g t a c t g g t c

840 (in frame with enterokinase site) LDRIFNVMGFPADKDWEDIK LDRIFNVMGFPADKDWEDIK c t g g a c a g a a t a t t c a a t g t a a t g g g a t t t c c t g c a g a t a a a g a t t g g g a a g a t a t a a a a g a c c t g t c t t a t a a g t t a c a t t a c c c t a a a g g a c g t c t a t t t c t a a c c c t t c t a t a t t t t

SnaBIBsaAIBstZ17IAseI 900 (in frame with enterokinase site) KMPEHSTLMKDFRRNTYTNC KMPEHSTLMKDFRRNTYTNC a a g a t g c c t g a a c a t t c a a c a t t a a t g a a a g a t t t c a g a a g a a a t a c g t a t a c c a a c t g c t t c t a c g g a c t t g t a a g t t g t a a t t a c t t t c t a a a g t c t t c t t t a t g c a t a t g g t t g a c g

End (936) 3ʹ 5ʹ 936 (in frame with enterokinase site) SLIKYMEKHKVK SLIKYMEKHKVK a g c c t t a t c a a g t a t a t g g a a a a a c a t a a a g t t a a a t c g g a a t a g t t c a t a t a c c t t t t t g t a t t t c a a t t t

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.