Addgene pJL-SaBE3 Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pJL-SaBE3 Sequencing Result

Map View

800 600 400 200 End (874) DrdI (786) PpuMI - EcoO109I (779) SmaI (777) XmaI - TspMI (775) XcmI (737) SapI - BspQI (704) TatI (617) StyI - AvrII (574) EcoP15I (497) StuI (461) ApoI - EcoRI (376) BglI (350) BsgI (336) CsiI SexAI * (325) DraIII (314) HincII (264) NaeI (211) BsrFI - NgoMIV (209) AseI (197) BfuAI - BspMI (187) BsaI (169) Esp3I - BsmBI (108) SfcI (53) T7 (41 .. 60) BsiEI (37) NotI - EaeI - EagI - SacII (34) BtgI (31) Start (0) T7 promoter APOBEC-1 pJL-SaBE3 874 bp

Sequence View

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

BsmBIEsp3I 120 1 5 10 15 MSSETGPVAVDPTLRR APOBEC-1 MSSETGPVAVDPTLRR a g a g c c g c c a c c a t g a g c t c a g a g a c t g g c c c a g t g g c t g t g g a c c c c a c a t t g a g a c g g t c t c g g c g g t g g t a c t c g a g t c t c t g a c c g g g t c a c c g a c a c c t g g g g t g t a a c t c t g c c

BsaI 180 20 25 30 35 RIEPHEFEVFFDPRELRKET APOBEC-1 RIEPHEFEVFFDPRELRKET c g g a t c g a g c c c c a t g a g t t t g a g g t a t t c t t c g a t c c g a g a g a g c t c c g c a a g g a g a c c g c c t a g c t c g g g g t a c t c a a a c t c c a t a a g a a g c t a g g c t c t c t c g a g g c g t t c c t c t g g

NgoMIVBsrFINaeIAseIBspMIBfuAI 240 40 45 50 55 CLLYEINWGGRHSIWRHTSQ APOBEC-1 CLLYEINWGGRHSIWRHTSQ t g c c t g c t t t a c g a a a t t a a t t g g g g g g g c c g g c a c t c c a t t t g g c g a c a t a c a t c a c a g a c g g a c g a a a t g c t t t a a t t a a c c c c c c c g g c c g t g a g g t a a a c c g c t g t a t g t a g t g t c

HincII 300 60 65 70 75 NTNKHVEVNFIEKFTTERYF APOBEC-1 NTNKHVEVNFIEKFTTERYF a a c a c t a a c a a g c a c g t c g a a g t c a a c t t c a t c g a g a a g t t c a c g a c a g a a a g a t a t t t c t t g t g a t t g t t c g t g c a g c t t c a g t t g a a g t a g c t c t t c a a g t g c t g t c t t t c t a t a a a g

BglIBsgISexAI*CsiIDraIII 360 80 85 90 95 CPNTRCSITWFLSWSPCGEC APOBEC-1 CPNTRCSITWFLSWSPCGEC t g t c c g a a c a c a a g g t g c a g c a t t a c c t g g t t t c t c a g c t g g a g c c c a t g c g g c g a a t g t a c a g g c t t g t g t t c c a c g t c g t a a t g g a c c a a a g a g t c g a c c t c g g g t a c g c c g c t t a c a

EcoRIApoI 420 100 105 110 115 SRAITEFLSRYPHVTLFIYI APOBEC-1 SRAITEFLSRYPHVTLFIYI a g t a g g g c c a t c a c t g a a t t c c t g t c a a g g t a t c c c c a c g t c a c t c t g t t t a t t t a c a t c t c a t c c c g g t a g t g a c t t a a g g a c a g t t c c a t a g g g g t g c a g t g a g a c a a a t a a a t g t a g

StuI 480 120 125 130 135 ARLYHHADPRNRQGLRDLIS APOBEC-1 ARLYHHADPRNRQGLRDLIS g c a a g g c t g t a c c a c c a c g c t g a c c c c c g c a a t c g a c a a g g c c t g c g g g a t t t g a t c t c t c g t t c c g a c a t g g t g g t g c g a c t g g g g g c g t t a g c t g t t c c g g a c g c c c t a a a c t a g a g a

EcoP15I 540 140 145 150 155 SGVTIQIMTEQESGYCWRNF APOBEC-1 SGVTIQIMTEQESGYCWRNF t c a g g t g t g a c t a t c c a a a t t a t g a c t g a g c a g g a g t c a g g a t a c t g c t g g a g a a a c t t t a g t c c a c a c t g a t a g g t t t a a t a c t g a c t c g t c c t c a g t c c t a t g a c g a c c t c t t t g a a a

AvrIIStyI 600 160 165 170 175 VNYSPSNEAHWPRYPHLWVR APOBEC-1 VNYSPSNEAHWPRYPHLWVR g t g a a t t a t a g c c c g a g t a a t g a a g c c c a c t g g c c t a g g t a t c c c c a t c t g t g g g t a c g a c a c t t a a t a t c g g g c t c a t t a c t t c g g g t g a c c g g a t c c a t a g g g g t a g a c a c c c a t g c t

TatI 660 180 185 190 195 LYVLELYCIILGLPPCLNIL APOBEC-1 LYVLELYCIILGLPPCLNIL c t g t a c g t t c t t g a a c t g t a c t g c a t c a t a c t g g g c c t g c c t c c t t g t c t c a a c a t t c t g g a c a t g c a a g a a c t t g a c a t g a c g t a g t a t g a c c c g g a c g g a g g a a c a g a g t t g t a a g a c

BspQISapI 720 200 205 210 215 RRKQPQLTFFTIALQSCHYQ APOBEC-1 RRKQPQLTFFTIALQSCHYQ a g a a g g a a g c a g c c a c a g c t g a c a t t c t t t a c c a t c g c t c t t c a g t c t t g t c a t t a c c a g t c t t c c t t c g t c g g t g t c g a c t g t a a g a a a t g g t a g c g a g a a g t c a g a a c a g t a a t g g t c

TspMIXmaISmaIEcoO109IPpuMIXcmI 780 220 225 RLPPHILWATGLK (in frame with APOBEC-1) SGSETPG APOBEC-1 RLPPHILWATGLKSGSETPG c g a c t g c c c c c a c a c a t t c t c t g g g c c a c c g g g t t g a a a a g c g g c a g c g a g a c t c c c g g g g c t g a c g g g g g t g t g t a a g a g a c c c g g t g g c c c a a c t t t t c g c c g t c g c t c t g a g g g c c c

DrdI 840 (in frame with APOBEC-1) TSESATPESGKRNYILGLAI TSESATPESGKRNYILGLAI a c c t c a g a g t c c g c c a c a c c c g a a a g t g g g a a a c g g a a c t a c a t c c t g g g g c t t g c c a t t t g g a g t c t c a g g c g g t g t g g g c t t t c a c c c t t t g c c t t g a t g t a g g a c c c c g a a c g g t a a

End (874) 3ʹ 5ʹ 874 (in frame with APOBEC-1) GITSVGYGIID GITSVGYGIID g g g a t a a c c a g c g t t g g c t a c g g a a t t a t t g a t t c c c t a t t g g t c g c a a c c g a t g c c t t a a t a a c t a 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.