From Wikibooks, open books for an open world
Jump to navigation Jump to search
The GENtle manual

About - FAQ - Setup - DNA - Protein - PCR and Primer Design - Sequencing - Alignments - Calculators - Virtual Gel - Image Viewer - Tools and Dialogs - Web interface - Graphs and plots - DNA map - Sequence map - Dot plot - Restriction Identifier

The DNA modul.

Within the DNA module, DNA sequences can be viewed, edited and annotated. It is the central module of GENtle. Two major components of the DNA module are the DNA map and the Sequence map; see there for details.

Open and display DNA[edit | edit source]

A DNA sequence can be opened in one of the following ways:

Toolbar[edit | edit source]

Several functions and display options can be invoked in the tool bar:

  • Enter sequence
  • Open sequence
  • Save sequence
  • Undo
  • Cut
  • Copy
  • Paste
  • Toggle linear/circular
  • Show/hide open reading frames
  • Show/hide features
  • Show/hide restriction sites
  • Expand (=show only) map
  • Toggle edit mode
  • Zoom

Detail tree[edit | edit source]

The detail tree, left of the DNA map, shows all parts of the current sequence, including features and restriction enzymes, in a structured fashion. Features and restriction enzymes can be toggled in visibility by a double click, or further manipulated through the context menu.

Special menus[edit | edit source]

View/Show 3'->5' Show the complementary DNA strand in the sequence map
Edit/Edit ORFs Change the settings for open reading frame display
Edit/Show possible sequencing primers Opens the Sequencing Primers dialog, which can add possible sequencing primers as features
Edit/Remove sequencing primers Removes all sequencing primers generated by the above function from the sequence
Edit/Auto-annotate sequence Finds features from common vectors and other databases in the current sequence
File/Print map Prints the DNA map
File/Print sequence Prints the Sequence map
File/Print report Prints a brief overview. See Printing