DNA sequence editing software

dna online tools

WebDSV is an online DNA sequence editor and map drawing program. It provides basic analysis of DNA sequences (restriction sites, GC-content).

A user can mark sequence features and visualize them along the sequence and in feature map

WebDSV can be used to perform plasmid cloning in silico, design PCR primers, or to plan a gene synthesis

Useful for molecular cloning and synthetic biology

Online program to open GenBank files

Online program to draw map from a GenBank file

Successor of molecular cloning help

online plasmid editor software, app to draw a plasmid map

visualize genbank files

online DNA software, online molecular biology applications

Molecular biology freeware, dna sequence manipulation suite

Gene design software

Gene synthesis design tool

Free plasmid cloning software

online app to design molecular cloning experiments, molecular cloning program, molecular cloning design

molecular genetics software

plasmid software

plasmid design program

vector design application

DNA cloning application

DNA sequence translation online tool

DNA translation, DNA translator, free dna tools

online dna to protein translation tool

online protein translation tool, nucleotide protein translation

dna sequence to protein

DNA sequence reverse complement tool

online DNA cloning design

transcription and translation sequence tool, translate tool

alternative to ape plasmid editor

alternative to clone manager

alternative to serial cloner

alternative to benchling

alternative to genome compiler

alternative to snapgene

alternative to geneious

alternative to pDRAW32

alternative to DNA lasergene

alternative to VectorNTI

alternative to Gene Construction Kit

solution to plasmid mapping practice problems, online editor vector

polylinker or multiple cloning sites region highligting

restriction mapping of plasmid dna

design pcr primers with restriction sites

design dna cloning online

WebDSV is molecular biology software that allows users to plan, visualize, and document molecular biology procedures.


quick hints genetic code genetic code compatible ends useful linx send feedback user guide
Display quick hints Display standard genetic code IUPAC ambiguous/degenerate positions Enzymes producing compatible ends Useful links Send feedback! User guide

Resize the application

Switch color theme

Open a new WebDSV window


linear circular


Save as Fasta
Save as GenBank

SEQUENCE INFORMATION (GenBank file header)

Locus (or name):

Select All
Rev. Complement
a > A
A > a
Add Feature
Forw. Primer
Rev. Primer
Translate Rev.
Selection: -
Clear All
Reverse Complement
Undo Changes
Apply & Process
View Example
Restriction Site:
Find Rev. Compl.
Clear Search



To display the cutting pattern and positions, doubleclick the enzyme name. To apply changes made in the selection, press 'Enter' key or click the 'Apply' button.



  • Basic sequence handling:

    • Paste a DNA sequence in the editor field, open a sequence file, or download a sequence from GenBank.
    • Edit the sequence in the editor field as required, click 'Aplly & Process' after each step.
    • To mark a feature, first select the feature sequence in the editor field then click 'Add Feature'. Edit the feature type and visualization settings in the feature panel.
    • To save a sequence with marked features, use the 'Save GenBank' button.
  • Tips for efficient work

    • The visualization field cannot be used for editing. However, you can easily select a nucleotide position of interest in the editor field by doubleclicking the corresponding nucleotide in the visualization field. Use Ctrl+doubleclick to select spans of nucleotides. Similarly, doubleclicking an amino acid symbol, restriction site or feature label will select the corresponding sequence in the editor field.
    • To perform in silico molecular cloning, doubleclick the first restriction enzyme name in the visualization field, press Ctrl key and doubleclick the second restriction enzyme name. The corresponding DNA fragment will get selected in the editor field. Now you can use Ctrl+C and Ctrl+V for copying the fragment's sequence and pasting it into a target vector sequence already open in another WebDSV browser tab or window.


Basic settings

Restriction sites:

display all sites
display only unique sites
display sites with maximum occurences

Restriction sites blocked by methylation (Dam or Dcm):

display and take into account

Genetic code:

Copy other genetic codes from the Genetic Codes NCBI webpage.


Font sizes in the visualization field:


Map drawing settings

Feature labels in maps:

with position values
without position values

Restriction sites in maps:

with position values
without position values

Basic circle diameter in plasmid maps:


Inside plasmid maps show:

plasmid name and length
1000 bp scale

In plasmid maps, group restriction sites to list blocks if:

At least restriction sites are detected
within a range of no more than nucleotides.

PCR primers

Primer multi-match detection limit:

nucleotide perfect match at 3' end

Tm calculation

Primer concentration (nM):
Total monovalent cation concentration (mM):
Mg2+concentration (mM):
Total dNTPs concentration (mM):


genetic code


Symbol Bases represented Complement
R A, G Y
Y C, T R
K G, T M
M A, C K
S C, G S
W A, T W
B C, G, T V
D A, G, T H
H A, C, T D
V A, C, G B
N A, C, G, T N


Overhang Enzymes
N│G A T C N N C T A G│N BamHI, BglII
N│A A T T N N T T A A│N EcoRI, MfeI (MunI)
N│T C G A N N A G C T│N SalI, XhoI
N│C T A G N N G A T C│N AvrII (XmaJI), NheI, SpeI (BcuI), XbaI
N T G C A│N N│A C G T N NsiI (Mph1103I), PstI
N│G T A C N N C A T G│N Acc65I (Asp718I), BsiWI (Pfl23II), BsrGI (Bsp1407I)
N│C C G G N N G G C C│N AgeI (BshTI), BspEI (Kpn2I), XmaI (Cfr9I)
N│G G C C N N C C G G│N EagI (Eco52I), PspOMI (Bsp120I), NotI
N│C G C G N N G C G C│N AscI (SgsI), BssHII (PauI), MluI
N N│C G N N N N G C│N N AclI (Psp1406I), BstBI (Bsp119I), ClaI (Bsu15I), NarI
N N│T A N N N N A T│N N AseI (VspI), NdeI
N N A T│N N N N│T A N N PacI, PvuI
blunt ends AfeI (Eco47III), BsaBI (BseJI), DraI, EcoRV (Eco32I), Ecl136II, FspI (NsbI), HpaI (KspAI), MscI (MlsI), NaeI (PdiI), NruI (Bsp68I), PmeI (MssI), PmlI (Eco72I), PvuII, ScaI, SfoI (EheI), SmaI, SnaBI (Eco105I), SrfI, SspI, StuI (Eco147I), SwaI (SmiI), XmnI (PdmI), ZraI

Real-time On-selection Calculations

WebDSV calculates the selected sequence length, GC-content, and predicted melting temperature in real time when the user is selecting a sequence in the Editor Field. The melting temperature prediction is limited to length interval 10 - 120 bp and is based on the nearest neighbor method with parameters described in SantaLucia 1998 (see the WebDSV manual for more details and a full reference).

Click the GC-content value to see a GC-content plot.


Share on Twitter
Submit to Reddit

DISCLAIMER: This free software comes without any warranty. The author of the software bears no responsibility for any loss or damage that may arise from its use for gene synthesis design or any other purpose.

New Feature
PCR Product
Start - end distance: nothing selected

Warning: This application is not compatible with Microsoft Internet Explorer. Please consider using one of the up-to-date internet browsers (Firefox, Chrome, Opera etc.).