The following table describes the parameters in the Oligonucleotide Sequence Editor.
Parameter | Description |
|---|---|
Sequence Information pane | |
Target Oligonucleotide area | Displays parameters for the entire oligonucleotide. |
Name | Displays the name of the oligonucleotide sequence. |
Description | Displays the description of the oligonucleotide sequence. |
Category | Displays the category of the oligonucleotide sequence. |
Monoisotopic Mass | Read-only. Displays the monoisotopic mass of the oligonucleotide. |
Average Mass | Read-only. Displays the average mass of the oligonucleotide. |
Formula | Read-only. Displays the molecular formula of the oligonucleotide. |
Chain area | Displays parameters for a specific chain in the oligonucleotide. |
Chain (dropdown list) | Displays the number assigned to each chain in the oligonucleotide. Select a chain number from the dropdown list to display its specific properties in the Chain area. |
Monoisotopic Mass | Displays the monoisotopic mass of the chain selected in the Chain list. |
Average Mass | Displays the average mass of the chain selected in the Chain list. |
Random Sequence Generator area | |
Randomized sequence | Displays the number of randomized sequences (up to 5) the application generates and saves with the original oligonucleotide sequence. |
Oligo Sequence Map pane | Displays the entire oligonucleotide sequence (all added chains) using either single-base (ATCGA) or triplet (Ad-pTd-pCd-pAd) notation. |
Manual Input Protein Sequence pane | |
Chain Name | Displays the name of the chain in the oligonucleotide sequence. |
(Sequence editor box) | Provides an area for you to type or paste the new chain information. |
Edit Sequence pane | Displays dropdown lists to change the 5'-terminal, 3'-terminal, and base building blocks in each chain in the oligonucleotide sequence. |
Assign Variable Modifications pane | Displays the variable modifications you can assign to the 5'-terminal, 3'-terminal, and bases in the oligonucleotide sequence. |
Building Block and Variable Modification Editor pane | Displays all the oligo building blocks and variable modifications you can edit. |
The following table describes the commands in the Oligonucleotide Sequence Editor.
Command | Description |
|---|---|
Import Fasta File | Imports an oligonucleotide sequence directly 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. |
Cancel | Closes the Oligonucleotide Sequence Editor without saving any changes. |