Amino Acid Sequence Search

(link to screenshot 11) GeneDesigner permits you to search for any sequence that exists within a construct.

• This search will identify an amino acid sequence that is present
  • within an amino acid element
  • encoded within a DNA element
  • encoded within a DNA sequence that results from the juxtaposition of two or more elements
• In Sequence View select the “Find” panel (label in screenshot 11)
  • Select the “Amino Acids” tab
  • Type a sequence into the “Sequence” box
  • Click the “Find” button
    • Results are displayed in a hit list, which displays the position of each occurrence of the amino acid sequence
    • Clicking on the sequence / motif in the hit list highlights the site within the local sequence window
  • Initiate a new search by clicking on the “back/clear” button

• The default settings are to search for the selected sequence / motif within every construct in the project
• To limit the search to a single construct, or just a part of a construct, select the “Restrict Search” button (label in screenshot 9).
  • Selecting this button will restrict the search to constructs or elements that are highlighted in the Navigation Pane.