The following table describes the parameters in the Oligonucleotide Sequence Editor.
Parameter | Description |
|---|---|
Command bar | |
Import Fasta File | Imports a sequence from a FASTA file. |
Define Modification List | Opens the Define Modification List dialog box. |
Save | Saves the changes to a sequence under its existing name. |
Save As New | Opens the Save As New dialog box to save the sequence under a new name. |
Close | Closes the Oligonucleotide Sequence Editor. |
Sequence Information pane | |
Target Oligonucleotide | |
Name | Specifies the name of the oligonucleotide sequence. |
Description | Provides a description of the oligonucleotide sequence. |
Sample Type | Read-only. Displays the sample type of the sequence. |
Category | Specifies the category of the oligonucleotide sequence. |
Monoisotopic Mass | Displays or specifies the monoisotopic mass of the oligonucleotide sequence. After you enter the chain information, this box becomes read-only. |
Average Mass | Displays or specifies the average mass of the oligonucleotide sequence. After you enter the chain information, this box becomes read-only. |
Formula | Displays the molecular formula for the entire oligonucleotide. After you enter the chain information, this box becomes read-only. |
Apply (button) | Applies the input oligonucleotide sequence information. |
Chain | |
Chain | Lists the number of each chain in the oligonucleotide sequence. |
Monoisotopic Mass | Displays the monoisotopic mass of the chain that you selected in the Chain list. |
Average Mass | Displays the average mass of the chain that you selected in the Chain list. |
Random Sequence Generator | |
Randomized Sequence | Specifies the number of random sequence variations of your oligonucleotide sequence the application creates and saves with alongside your original sequence. |
Apply (button) | Adds the random generated oligonucleotide sequences to the Oligo Sequence Map. |
Oligo Sequence Map | Displays the nucleotides in the chains in the oligonucleotide sequence. |
Oligo Information pane | Displays a graphical depiction of two nucleotides with a phosphate linker. The text to the right of the graphic describes how to define customized bases, linkers, and 2' ribose groups. |
Manual Input Sequence pane | Use this pane to manually input the chains in an oligonucleotide sequence. |
Chain Name | Specifies the name of an added chain in the oligonucleotide sequence. |
(Editor box) | Provides an area for you to type or paste the new chain information. |
Apply (button) | Adds the new chain to the Protein Sequence Map pane. |
Edit Sequence pane | Use this pane to edit the building blocks of the selected chain and adjust the 3' and 5' terminals. |
Assign Variable Modifications pane | Use this pane to assign variable modifications to the sequence. The application searches for these modified sequences to identify detected components. |
Building Block and Variable Modification Editor pane | Displays oligo building blocks and oligonucleotide variable modifications for you to manage. |