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FAQ: How can I import and open my VectorNTI files? 
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Joined: Tue Feb 08, 2011 8:23 pm
Posts: 19
Post FAQ: How can I import and open my VectorNTI files?
Using Vector NTI sequence files with MacVector

If you are using MacVector 10.6 or above then there is a new function that allows you to directly import sequence data from databases created by Vector NTI Advance v10 or earlier. You can download a fully functional 21 day trial version of MacVector to test this functionality. We also offer a 50% discount when you purchase a license if you are migrating from VectorNTI to MacVector and can provide proof.

You have several options available for opening VectorNTI sequences in MacVector.

Directly accessing the Vector NTI database.

- Select the Database->Vector NTI Import… menu item and then click on the Choose button to locate the Vector NTI database folder on your file system.

If the database resides on a Windows machine then make sure to share the parental directory containing the Vector NTI Database folder on the remote machine, then connect to that machine using the Finder Go->Connect to Server… menu item.

- Once a database has been selected, MacVector will display a list of all of the sequences available in the database. There is a popup menu to toggle between Nucleic Acid and Protein sequences. The list can be sorted to more easily identify sequence(s) of interest. Select one or more sequences and then click either the To Desktop button to open those sequences in MacVector, or To Disk to save the sequences in MacVector format to a folder on your hard drive.

MacVector will read all of the standard features and annotations associated with each sequence. Currently, feature appearance information is discarded and the default MacVector feature representations are used instead. In addition, MacVector ignores any restriction enzyme sites annotated in the database sequence and replaces them with the default dynamic set of sites used by the Map tab. However, all sequence features and related information are preserved. MacVector follows the Genbank format for the features table and is always kept up to date with the latest Genbank release, so where possible MacVector will also migrate any old and deprecated features information contained in the VectorNTI file into the current up to date features nomenclature.

Using the Vector NTI "Save as File" ("Export") option

If you are using aversion of MacVector earlier than 10.6, or if you prefer to export your files from Vector NTI first, then you can export (Save As) your sequence files from Vector NTI then open them in MacVector. By default, Vector NTI saves nucleic acid sequences in GenBank format and protein sequences in GenPept format when the File->Save As->Save As File option is used to save individual sequence files (an alternate approach is the File->Molecule Operations->Export option). Other text file format output options include EMBL (nucleic acid only), SWISS-PROT (protein only), and FASTA (nucleic acid or protein), all of which can be read by any version of MacVector. An easy way to export a Vector NTI database molecule to an external file is to select it in the Vector NTI explorer and drag it to the Windows desktop or to a Windows folder. By default, nucleic acid sequences are converted into GenBank text file format while protein sequences are converted into GenPept text file format.

It's also possible to export sequences from the Vector NTI Explorer by right-clicking on the desired molecule and selecting Export->Molecule into Text File, and then selecting the desired format. Alternatively, you can use the File->Export menu item.

Another option is to export an entire Vector NTI database as individual GenBank format files. You can do this by opening the Vector NTI Explorer, selecting the type of molecules to export (i.e., DNA/RNA Molecules), then clicking Table->Export->Subset into Directory of Text Files.

Fri May 06, 2011 3:12 pm
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