Addgene pcDNA HA HP1 gamma delta C Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pcDNA HA HP1 gamma delta C Sequencing Result

Map View

600 400 200 End (779) BtgZI (746) BGH-rev (647 .. 664) BclI * (640) SP6 (610 .. 627) MslI (623) ApaI - BaeGI - Bme1580I (604) PspOMI (600) XbaI (594) NsiI (593) NspI - SphI (591) AvaI - SmlI - XhoI - BsoBI - PspXI - PaeR7I (582) BspHI (520) XmnI (328) SspI (243) BmgBI (219) AflIII (218) ScaI (208) TatI (206) EarI (166) EcoRI (132) MflI * - BstYI - BamHI (93) KpnI (85) Acc65I (81) HindIII (75) BsaI (62) T7 (49 .. 68) AseI (48) Start (0) T7 promoter HA SP6 promoter bGH poly(A) signal pcDNA HA HP1 gamma delta C 779 bp

Sequence View

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

BamHIBstYIMflI*HindIIIAcc65IKpnIBsaI 120 1 5 YPYDV T7 promoter HA C T A T A G G G T7 MYPYDV c t a t a g g g a g a c c 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 c a t g t a c c c a t a c g a t g t t c g a t a t c c c t c t g g 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 g t a c a t g g g t a t g c t a c a a g

EarIEcoRI 180 PDYA (in frame with HA) EFGKKQNGKSKKVEEA HA PDYAEFGKKQNGKSKKVEEA c a g a t t a c g c t g a a t t c g g a a a a a a a c a g a a t g g a a a g a g t a a a a a a g t t g a a g a g g c a g g t c t a a t g c g a c t t a a g c c t t t t t t t g t c t t a c c t t t c t c a t t t t t t c a a c t t c t c c g t c

AflIIIBmgBITatIScaI 240 (in frame with HA) EPEEFVVEKVLDRRVVNGKV EPEEFVVEKVLDRRVVNGKV a g c c t g a a g a a t t t g t c g t g g a a a a a g t a c t a g a t c g a c g t g t a g t g a a t g g g a a a g t g g t c g g a c t t c t t a a a c a g c a c c t t t t t c a t g a t c t a g c t g c a c a t c a c t t a c c c t t t c a c c

SspI 300 (in frame with HA) EYFLKWKGFTDADNTWEPEE EYFLKWKGFTDADNTWEPEE a a t a t t t c c t g a a g t g g a a g g g a t t t a c a g a t g c t g a c a a t a c t t g g g a a c c t g a a g a a a t t a t a a a g g a c t t c a c c t t c c c t a a a t g t c t a c g a c t g t t a t g a a c c c t t g g a c t t c t t t

XmnI 360 (in frame with HA) NLDCPELIEAFLNSQKAGKE NLDCPELIEAFLNSQKAGKE a t t t a g a t t g t c c a g a a t t g a t t g a a g c g t t t c t t a a c t c t c a g a a a g c t g g c a a a g a a a t a a a t c t a a c a g g t c t t a a c t a a c t t c g c a a a g a a t t g a g a g t c t t t c g a c c g t t t c t t t

420 (in frame with HA) KDGTKRKSLSDSESDDSKSK KDGTKRKSLSDSESDDSKSK a a g a t g g t a c a a a a a g a a a a t c t t t a t c t g a c a g t g a a t c t g a t g a c a g c a a a t c a a a g a t t c t a c c a t g t t t t t c t t t t a g a a a t a g a c t g t c a c t t a g a c t a c t g t c g t t t a g t t t c t

480 (in frame with HA) KKRDAADKPRGFARGLDPER KKRDAADKPRGFARGLDPER a g a a a a g a g a t g c t g c t g a c a a a c c a a g a g g a t t t g c c a g a g g t c t t g a t c c t g a a a g a a t c t t t t c t c t a c g a c g a c t g t t t g g t t c t c c t a a a c g g t c t c c a g a a c t a g g a c t t t c t t

BspHI 540 (in frame with HA) IIGATDSSGELMFLMKWKDS IIGATDSSGELMFLMKWKDS t a a t t g g t g c c a c a g a c a g c a g t g g a g a a t t g a t g t t t c t c a t g a a a t g g a a a g a t t c a g a t t a a c c a c g g t g t c t g t c g t c a c c t c t t a a c t a c a a a g a g t a c t t t a c c t t t c t a a g t c

SphINspINsiIXbaIPaeR7IBsoBIPspXIXhoISmlIAvaI 600 (in frame with HA) DEADLVLAKEANM* DEADLVLAKEANM* a t g a g g c a g a c t t g g t g c t g g c g a a a g a g g c a a a t a t g t a g c t c g a g c a t g c a t c t a g a g t a c t c c g t c t g a a c c a c g a c c g c t t t c t c c g t t t a t a c a t c g a g c t c g t a c g t a g a t c t c

BclI*MslIPspOMIBme1580IBaeGIApaI 660 SP6 promoter bGH poly(A) signal G A T A T C A C A G T G G A T T T A SP6 G G A G C T G A C A C G G A BGH-rev g g c c c t a t t c t a t a g t g t c a c c t a a a t g c t a g a g c t c g c t g a t c a g c c t c g a c t g t g c c t c c g g g a t a a g a t a t c a c a g t g g a t t t a c g a t c t c g a g c g a c t a g t c g g a g c t g a c a c g g a

720 bGH poly(A) signal A G A T BGH-rev t c t a g t t g c c a g c c a t c t g t t g t t t g c c c c t c c c c c g t g c c t t c c t t g a c c c t g g a a g g t a g a t c a a c g g t c g g t a g a c a a c a a a c g g g g a g g g g g c a c g g a a g g a a c t g g g a c c t t c c a

End (779) BtgZI 3ʹ 5ʹ 779 bGH poly(A) signal g c c a c t c c c a c t g t c c t t t c c t a a t a a a a t g a g g a a a t t g c a t c g c a t t g t c t g a g t a g c g g t g a g g g t g a c a g g a a a g g a t t a t t t t a c t c c t t t a a c g t a g c g t a a c a g a c t c a 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.