Addgene pNX3c-HA3 Sequencing Result - Sequence Analyzer Skip to main content
Addgene

Sequence Analyzer: pNX3c-HA3 Sequencing Result


Map View

800 600 400 200 End (870) DraI (858) BciVI (852) BtgI - NcoI (805) AgeI - BsaWI (775) SmaI (758) AvaI - XmaI - BsoBI - TspMI (756) BglI (741) XcmI (737) NmeAIII (727) PpuMI - EcoO109I (722) BbsI (708) PflFI - Tth111I (707) PfoI (568) PshAI (564) BsiWI (553) Esp3I - BsmBI (510) NaeI (495) NgoMIV (493) DrdI (476) BsiHKAI (462) BssHII (435) BanII (426) NruI (420) BsrBI (400) PluTI (396) SfoI (394) NarI (393) KasI (392) BstEII (368) HincII (361) BpmI - Eco57MI (359) SgrAI (351) MluI - AflIII (340) EciI (321) MslI (252) NspI - SphI (251) BstAPI (248) ScaI (230) TatI (228) FspI (84) EcoP15I (60) BsmI (47) Start (0) TEF terminator NrsR pNX3c-HA3 870 bp

Sequence View

BsmIStart (0) 5ʹ 3ʹ 60 TEF terminator a c t g g a t g g c g g c g t t a g t a t c g a a t c g a c a g c a g t a t a g c g a c c a g c a t t c a c a t a c g a t g a c c t a c c g c c g c a a t c a t a g c t t a g c t g t c g t c a t a t c g c t g g t c g t a a g t g t a t g c t

FspIEcoP15I 120 TEF terminator t t g a c g c a t g a t a t t a c t t t c t g c g c a c t t a a c t t c g c a t c t g g g c a g a t g a t g t c g a g g a a c t g c g t a c t a t a a t g a a a g a c g c g t g a a t t g a a g c g t a g a c c c g t c t a c t a c a g c t c c

180 TEF terminator c g a a a a a a a a t a t a a a t c a c g c t a a c a t t t g a t t a a a a t a g a a c a a c t a c a a t a t a a a a a g c t t t t t t t t a t a t t t a g t g c g a t t g t a a a c t a a t t t t a t c t t g t t g a t g t t a t a t t t t t

TatIScaI 240 190 *P TEF terminator NrsR *P a a c t a t a c a a a t g a c a a g t t c t t g a a a a c a a g a a t c t t t t t a t t g t c a g t a c t g a t t a g g t t g a t a t g t t t a c t g t t c a a g a a c t t t t g t t c t t a g a a a a a t a a c a g t c a t g a c t a a t c c

BstAPISphINspIMslI 300 185 180 175 170 CPMSMYLAQEGDSATGDYLA NrsR CPMSMYLAQEGDSATGDYLA g g c a g g g c a t g c t c a t g t a g a g c g c c t g c t c g c c g t c c g a g g c g g t g c c g t c g t a c a g g g c c g t c c c g t a c g a g t a c a t c t c g c g g a c g a g c g g c a g g c t c c g c c a c g g c a g c a t g t c c c

Eco57MIBpmISgrAIAflIIIMluIEciI 360 165 160 155 150 TDLGCLTFGMRRYAHIAPAN NrsR TDLGCLTFGMRRYAHIAPAN c g g t g t c c a g g c c g c a g a g g g t g a a c c c c a t c c g c c g g t a c g c g t g g a t c g c c g g t g c g t g c c a c a g g t c c g g c g t c t c c c a c t t g g g g t a g g c g g c c a t g c g c a c c t a g c g g c c a c g c a

NruIKasINarISfoIPluTIBsrBIBstEIIHincII 420 145 140 135 130 VNTVELWLHGAGRERAFETA NrsR VNTVELWLHGAGRERAFETA t g a c g t t g g t g a c c t c c a g c c a g a g g t g c c c g g c g c c c c g c t c g c g g g c g a a c t c c g t c g a c t g c a a c c a c t g g a g g t c g g t c t c c a c g g g c c g c g g g g c g a g c g c c c g c t t g a g g c a g c

DrdIBsiHKAIBssHIIBanII 480 125 120 115 110 LGMLARGVGHGRHEPAVEID NrsR LGMLARGVGHGRHEPAVEID c g a g c c c c a t c a a c g c g c g c c c g a c c c c g t g c c c c c g g t g c t c c g g g g c g a c c t c g a t g t g c t c g g g g t a g t t g c g c g c g g g c t g g g g c a c g g g g g c c a c g a g g c c c c g c t g g a g c t a c a

BsmBIEsp3INgoMIVNaeI 540 105 100 95 90 EVTLRRNWGSYSVVVFGALD NrsR EVTLRRNWGSYSVVVFGALD c c t c g a c g g t c a g c c g g c g g t t c c a g c c g g a g t a c g a g a c g a c c a c g a a g c c c g c c a g g t g g a g c t g c c a g t c g g c c g c c a a g g t c g g c c t c a t g c t c t g c t g g t g c t t c g g g c g g t c c a

PshAIPfoIBsiWI 600 85 80 75 70 GDDGYAVFTRSDPDGDEGDD NrsR GDDGYAVFTRSDPDGDEGDD c g c c g t c g t c c c c g t a c g c g a c g a a c g t c c g g g a g t c c g g g t c g c c g t c c t c c c c g t c g t g c g g c a g c a g g g g c a t g c g c t g c t t g c a g g c c c t c a g g c c c a g c g g c a g g a g g g g c a g c a

660 65 60 55 50 SEDDSEDDPFVKTLPPDVPV NrsR SEDDSEDDPFVKTLPPDVPV c c g a t t c g t c g t c c g a t t c g t c g t c g g g g a a c a c c t t g g t c a g g g g c g g g t c c a c c g g c a g g c t a a g c a g c a g g c t a a g c a g c a g c c c c t t g t g g a a c c a g t c c c c g c c c a g g t g g c c g t

Tth111IPflFIBbsI 720 45 40 35 30 ERLTFGDGTATVRFVTDTTF NrsR ERLTFGDGTATVRFVTDTTF c c t c c c g c a g g g t g a a g c c g t c c c c g g t g g c g g t g a c g c g g a a g a c g g t g t c g g t g g t g a g g a g g g c g t c c c a c t t c g g c a g g g g c c a c c g c c a c t g c g c c t t c t g c c a c a g c c a c c a c t

BsaWIAgeITspMIBsoBIXmaIAvaISmaIXcmIBglIEcoO109IPpuMINmeAIII 780 25 20 15 10 SGDLAEIAEADGPVSTRYRY NrsR SGDLAEIAEADGPVSTRYRY a g g a c c c a t c c a g t g c c t c g a t g g c c t c g g c g t c c c c c g g g a c a c t g g t g c g g t a c c g g t t c c t g g g t a g g t c a c g g a g c t a c c g g a g c c g c a g g g g g c c c t g t g a c c a c g c c a t g g c c a

NcoIBtgI 840 5 1 ATDDLTTGM NrsR ATDDLTTGM a a g c c g t g t c g t c a a g a g t g g t a c c c a t g g t t g t t t a t g t t c g g a t g t g a t g t g a g a a c t t t c g g c a c a g c a g t t c t c a c c a t g g g t a c c a a c a a a t a c a a g c c t a c a c t a c a c t c t t g a

End (870) DraIBciVI 3ʹ 5ʹ 870 g t a t c c t a g c a a g a t t t t a a a a g g a a g t a t c a t a g g a t c g t t c t a a a a t t t t c c t t c a t 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.