Differences

This shows you the differences between two versions of the page.

--- tools [2021/01/18 14:10]
xxeytz [Converting Base Pair position to codon number]
+++ tools [2021/01/18 14:40] (current)
xxeytz [DNA Element Search]
@@ Line 16: / Line 16: @@
   * CAP binding sites
   * Mef2 binding sites
+For ribosome binding sites (Shine-Dalgarno and Kozak), optional minimum and maximum limits can be placed on the length of the predicted ORF to filter out unwanted results.
+{{:elementtools_2.png?400|}}
 The cutoff dropdown box can be used to set the stringency higher being more stringent and lower being less.
@@ Line 40: / Line 44: @@
 Clicking the “Cancel” button or hitting Escape will close the window, keeping any added annotations in the project.
 ===== Converting an amino acid sequence to a DNA sequence =====
+This tool can be accessed by clicking the Tools menu and the “Convert Amino Acid -> DNA” menu item.
+A codon table can be selected using the dropdown box at the top of the window (Standard is the default table).
+{{:aatodna_1.png?400|}}
+Enter amino acid sequence in the text box below and click the "Convert" button.  The resulting DNA sequence will be generated and displayed in the text box at the bottom.  This sequence uses the most frequent codon for each amino acid for the specified codon table.
+{{:aatodna_2.png?400|}}
+Planned future options to this window includes filtering out restriction sites and adjusting for repeats, GC content and others.

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