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SnapGene is the first molecular biology software that is easier to use than pen and paper. Now every DNA construct made in your lab can be documented in a rich electronic format… and thanks to the free SnapGene Viewer, the files can be shared with colleagues around the world.
Here are some of the things you can do with SnapGene.
Clontech’s In-Fusion® cloning is a remarkably versatile method for creating seamless gene fusions. SnapGene is the first software to simulate this procedure. Just select the DNA fragments that you wish to fuse, and SnapGene will design the primers.
Many researchers are turning to Gibson Assembly to insert fragments into a plasmid without the use of restriction enzymes. The DNA segments to be joined are amplified by PCR to create overlapping ends. SnapGene simplifies the planning of a Gibson Assembly reaction, and automates the primer design.
SnapGene’s unique restriction cloning interface displays the information you need in a clean layout. Planning of cloning procedures has never been simpler. If you already know what you want to do, the cloning simulation will take only a few seconds. If a cloning procedure has a design flaw, the error can be caught and corrected during the simulation.
PCR & Mutagenesis
After you design primers, they can be used to simulate conventional PCR, overlap extension PCR, or mutagenesis. The resulting DNA sequence files are immediately available for further manipulations. Like the restriction cloning interface, the primer-focused interfaces display key information in an intuitive way.
The most amazing thing about SnapGene is that it automatically records the steps in a cloning project. Each time you edit a sequence or simulate cloning or PCR or mutagenesis, the procedure is automatically logged in a graphical history. After simulating the creation of a DNA construct, you can use the history as an experimental protocol. Embedded in the final file are all of the ancestor constructs, each of which can be resurrected as a separate file.
Agarose Gel Electrophoresis
SnapGene uses an advanced algorithm to create realistic agarose gel simulations. Restriction fragments are shown in three formats: a simulated gel, a numerical list, and a sequence map. You can use the simulated gel to plan a diagnostic restriction digest, or to compare an actual gel image with the predicted pattern.
SnapGene highlights restriction sites in a clear way, automatically marking sites blocked by methylation. Simple controls allow you to choose useful enzyme sets such as “Unique Cutters”, or to define custom enzyme sets and preferred suppliers. Informative tooltips provide key data. The Restriction Enzymes window shows detailed properties for hundreds of commercial enzymes.
With SnapGene, annotating features in a DNA sequence is incredibly easy. The SnapGene format matches GenBank standards but adds options such as color, directionality, and segments. Coding sequences are translated so that you can visualize codons, track amino acid numbering, and check reading frames for gene fusions. Features can be imported from another file, or automatically annotated from a customizable list.
SnapGene offers revolutionary tools for designing and visualizing primers. Unlike many other programs, SnapGene uses rigorous thermodynamic algorithms to calculate melting temperatures and duplex alignments. You can use primers to simulate procedures such as PCR, mutagenesis, and In-Fusion® cloning. Primers can be imported from another file or exported to a text format.
Open Reading Frames (ORFs)
Press a button, and the potential ORFs in your sequence will be displayed in Map and Sequence views. Flexible options allow you to adjust the ORF parameters or to show full-sequence translations. To mark an ORF as a permanent annotation, simply select the ORF and then create a translated feature.
In this genomic era, your molecular biology software should be capable of handling chromosome-size sequences. Thanks to the proprietary MICA algorithm, SnapGene can be used to browse large sequences that have thousands of annotated features. Intelligent searching and zooming controls make the navigation of chromosomes a snap.