====== Managed Lists ======
GeneDesigner permits you to create lists of restriction sites or sequence motifs that you can use to search for within a sequence, or exclude from backtranslated sequences.
  * These lists can be created and edited from the Configure tab.

===== Restriction Site Lists =====
Restriction sites are managed by creating and editing lists of sites 
=== Creating a list ===
  * Click the "Add List" button
    * This creates a list named "New List"
  * Click on a List to change its name

=== Editing a list ===
  * Sites can be added to a list by selecting 
    * the list to be edited in the upper panel
    * one or more restriction sites in the lower panel
      * clicking the "Add to List" button 
      * or dragging the sites from the lower panel into the middle panel

  * Sequences can be removed from a list by selecting 
    * the list to be edited in the upper panel
    * one or more restriction sites in the middle panel
      * clicking the "Remove from List" button 
      * or dragging the sites from the middle panel into the trash

=== Using a group ===
Restriction site groups can be used for 
  * excluding during [[guide:backtranslate | backtranslation]]
  * searching a sequence for [[guide:REN search | restriction sites]]

===== Motif List =====
The motif list is a convenient way of storing sequences to be used during [[guide:backtranslate | backtranslation]] or [[guide:seq search | sequence searches]]. 
=== Adding a DNA motif ===
  * Click the "Add DNA motif" button
    * This creates a new sequence named "New DNA Sequence"
  * Enter the sequence
    * Use IUPAC standard bases to define degeneracies
    * Use {x,y} to permit flexibility within the definitions
      * For example ARGARGN{3,10}VTG = A[A/G]GA[A/G]G followed by between 3 and 10 bases then CTG, GTG or ATG

=== Adding an amino acid motif ===
   * Click the "Add AA motif" button
    * This creates a new sequence named "New AA Sequence"
  * Enter the sequence
    * Use standard 1 letter code