User Guides
If you have a question about a topic that is not covered here, then please contact us.
Topics
-
Installation
9
- Download, Install and Register SnapGene
- Adjust the Configuration
- Command Line: Installation and Activation
- Manage A SnapGene Subscription or Permanent License
- Cancel a Recurring Subscription License
- Unregister the Computer You Are Using
- Unregister a Computer Remotely
- Reactivate a Blacklisted Computer
- Set Up or Manage a Shared License Server
-
Preferences
32
- Open Full Screen Windows By Default
- Hide or Show the Description Panel By Default
- Show the Launch Window on macOS
- Configure Dark Mode and Background Color
- Set the Background Color (SnapGene 6.0 and earlier)
- Set the Default Font Size for New Files
- Set the Default Transformation Strain
- Set When SnapGene Checks for Updates
- Choose if SnapGene Sends Anonymous Statistics and Crash Reports
- Reset All Warning Messages
- Set the Default Location for Opening and Saving Files
- Set the Default Author For Files and Collections
- Set the Ancestor Limit for History Trees
- Set the Default Export Formats (SnapGene 6.0 or earlier)
- GenBank Export Customization
- Set the "Molecule Type" for Imported GenBank Files
- Prohibit /label Qualifiers in Exported GenBank Files
- Transfer Source Features During Cloning Simulations
- Set the Default Display Preferences for New Collections
- Set the Display Preferences for New and Imported DNA Sequences
- Set the Display Preferences for New and Imported RNA Sequences
- Display Feature Labels Below or Inside a Map
- Italicize Restriction Enzyme Names
- Don't Highlight Unique Cutters in Bold
- Highlight Blunt Cutters in Green
- Set the Default Primer Hybridization Parameters Used for New or Imported Sequences
- Show Full Structures for Primer-Template Duplexes
- Set the Default Display Preferences for New Protein Sequences
- Prohibit Region Labels Above a Protein Map
- Show Protein Molecular Weights in Daltons
- Set the Default Stringency for Hiding Chromatogram Ends
- Set Preferences for Agarose Gel Simulations
-
Display Options for DNA Sequences
14
- Change View Options for DNA Sequences
- Display a Circular Plasmid as a Linear (Horizontal) Map
- Show or Hide DNA Feature Labels
- Show Restriction Site or Primer Coordinates on a Map
- Show Features on the DNA Line
- Display a DNA Sequence Minimap
- Display Sequence as Plain Text
- Show a Translated CDS in 3-Letter Format
- Display the reverse complement of a dsDNA sequence
- Move the origin in a plasmid
- Set the Origin Coordinate for a Linear Sequence
- Adjust Line Width in Sequence View
- Show or Hide Sequences Aligned to a Reference Sequence
- View Sequence in Blocks of 3 or 10
-
Display Options for Protein Sequences
10
- Change View Options for Protein Sequences
- Show or Hide Protein Features
- Customize Protein Sequence Colors
- Show or Hide Protein Colors
- Hide or Show Protein Region Labels
- Show or Hide Protein Feature Numbering in Map View
- Show or Hide a Protein Minimap in Sequence View
- Show a Protein Sequence in Compact Format
- Display a Protein Sequence with One or Three Letter Amino Acid Codes
- Change the Protein Sequence Line Width
- Other Display Options 7
- Description Panel 4
-
Enzymes
13
- Show or Hide Individual Enzymes
- Choose an Enzyme Set
- Choose Enzymes Manually
- Highlight an Enzyme Site
- Display a Restriction Site Overview
- Sort Enzymes
- View Enzyme Information
- View Noncutters
- Save or Export Enzyme Set
- Manage Enzyme Sets
- Set the Preferences for Enzymes
- Add a Restriction Site to a Coding Sequence Without Changing the Translation
- Remove a Restriction Site From a Coding Sequence Without Changing the Translation
-
Features
25
- Create a Simple Feature
- Create a Translated Feature
- Adjust Translated Feature Numbering
- Create a Feature Segment
- Annotate Introns
- Add a Cleavage Arrow
- Create a Point Feature
- Edit Multiple Features
- Delete Features
- Confirm an In-Frame Gene Fusion
- Set the Genetic Code for a Feature
- Designate a Non-ATG Start Codon
- Show or Hide Features
- Sort the Feature List
- Import Feature Data
- Export Feature Data
- Splice to Remove Introns
- Detect Common Features
- Detect Custom Features
- Edit Common Features
- Share Custom Feature List
- Add Reference Information to a Feature
- Create a Feature with Introns Using an Aligned cDNA
- Prioritize Display of Features in Map View
- Edit Feature Qualifiers
- Custom Feature Types (SnapGene 6.0 and later) 6
- Primers 8
- Translations 6
- Colors 4
- Searching 4
- Zooming 3
- History 2
- RNA 5
- Proteins 4
- Restriction Cloning and Linear Ligation 7
- Gateway Cloning® 2
- Gibson Assembly® 3
- NEBuilder HiFi DNA Assembly® 3
- In-Fusion® Cloning 2
- TA or GC Cloning 1
- TOPO® Cloning 3
-
Golden Gate Assembly
6
- Golden Gate Cloning of a Single Fragment into a Vector
- Golden Gate Cloning of Multiple Fragments into a Vector with Type IIS Sites
- Golden Gate Cloning of Multiple Fragments into a Vector with no Golden Gate sites
- Golden Gate Cloning into a Vector Cut with non-Type IIS Enzymes
- Set the Enzymes for Golden Gate Assembly
- How is Golden Gate Fidelity Predicted in SnapGene?
- PCR and Mutagenesis 4
- Agarose Gel Simulation 11
-
Collections
19
- Make a New Collection
- Collection Areas
- Designate a Main Collection
- Open a Collection
- Add Files to a Collection
- Organize Sequences in a Collection
- Import from a Database to a Collection
- Export Files from a Collection
- Save Changes in a Collection
- Adjust the Collection Display Options
- Permanently Change a Collection's Display Settings
- Rename a File or Folder in a Collection
- Search a Collection
- Do Bulk Replacement in a Collection
- Define a Working Set in a Collection
- Specify a Description and Authors for a Collection
- Configure Code Numbers for a Collection
- Create Links Between Collection Areas
- Bulk edit the Description Information of multiple Sequences
-
Batch Operations
8
- Add Description Data to Multiple Sequences
- Add Common Features to Multiple DNA Sequences
- Import Features into Multiple SnapGene Files
- Import Primers into Multiple SnapGene Files
- Flip Multiple DNA Sequences
- Blast Multiple Sequences
- Batch Convert Sequence Files to a New Format
- Batch Trim File Histories
-
Importing and Exporting
13
- Import a Sequence from NCBI
- Import a Multisequence FASTA or GenBank File
- Import a Published Plasmid Sequence
- Import a Vector NTI Database
- Import Features from a GTF, GFF3, or BED File
- Import a BAM or SAM File
- Export a DNA Sequence
- Export Part of a DNA Sequence
- Export an Alignment
- Export a Protein Sequence
- Export Part of a Protein Sequence
- Export a DNA, RNA or Protein Map as an Image
- Export the Consensus from a DNA or Protein Multiple Alignment
-
Editing Sequences
10
- Create a New DNA or RNA Sequence
- Edit a DNA or RNA sequence
- Edit a Sanger (.ab1, .scf or .ztr) Trace File
- Edit DNA Ends
- Circularize or Linearize a DNA Sequence
- Extract a Restriction Fragment from a Sequence
- Extract a Region in a Sequence to a New File
- Edit the Sequence Name Label
- View or Use IUPAC Ambiguity Codes
- Copy a DNA or RNA Sequence to the Clipboard
- Assembly and Alignment 4
-
Pairwise and Multiple Alignment
9
- Create a Pairwise DNA Alignment
- Create a Pairwise Protein Alignment
- Create a Multiple Sequence Alignment
- Reorder or Rename Sequences in a Multiple Alignment
- Repeat an Alignment with an Alternative Algorithm, New Parameters or Changed Input
- Convert a DNA Alignment to a Protein Alignment
- View Features in Multiple Sequence Alignments
- View or Edit Features in a Multiple Alignment
- View or Edit Features in a Pairwise Alignment
- Single Stranded Sequences 2
- Designing Sequences 7
- Codon Usage 4
- Electronic Laboratory Notebooks 1
- Command Line Interface 2
- Blast 2
- Localization 1
- ShortCuts 1