MacVectorTip: Grayed out graphics indicate Missing Features

If the graphics in a nucleic acid sequence Map tab appear somewhat “washed out” it is because the graphic items represent common features that MacVector has found that are not annotated on the sequence. For example, here are the Map and Feature tabs of an unannotated cloning vector. You can see a number of features […]

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MacVectorTip: Scan For… Missing Primers: Automatically display Primer Binding Site on your sequences

MacVector’s Scan DNA For.. tool allows you to automatically display restriction enzyme recognition sites, putative ORFs, CRISPR PAM sites, missing annotation and also it will display primer binding sites from your own Primer Database in each DNA sequence that you open. Here’s an example of a couple of primers displayed on the pET 47b LIC […]

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MacVectorTip: Using the Align to Reference Shading and Trimming toolbar buttons

MacVector’s Align to Reference Editor and the Contig Editor in Assembly Projects have two useful functions for visualizing assemblies. The Shading button turns on background coloring of the residues in the upper pane, based on quality values (these can be from Sanger reads or from NGS reads). The scale ranges from a dark red for […]

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Importing SnapGene files into MacVector

MacVector will directly import SnapGene DNA files. You just need to use FILE | OPEN or double click the file. This is very useful when downloading plasmid sequences from the wonderful Addgene plasmid repository. When you import a Snapgene file the appearance will be very similar. The colors of features will be the same as […]

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Applescript: batch translation of CDS features

Apple’s AppleScript (along with Javascript for Automation) is an easy to write and easy to understand language that allows you to easily automate tasks in supported applications. Many Apple applications have a AppleScript Dictionary that defines what functions you can automate. MacVector has many such functions in its AppleScript Dictionary. You can auto annotate multiple […]

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MacVector 18.1 and the new InterProScan functional domain analysis tool

MacVector allows you to do functional domain analysis on your protein sequence using the InterProScan service. InterPro contains multiple databases of protein families, domains and motifs and InterProScan will submit a protein sequence to a search of these databases. It will also do extra analysis such as transmembrane region analysis using TMHMM and other tools.MacVector […]

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Make more of your alignments with MacVector 17.5

Our latest release MacVector 17.5 gives you new tools to make the most of your alignments. It displays shared domains in protein alignments to visualize the relationships between aligned proteins. It introduces Flye for de novo assembly of PacBio and Oxford Nanopore long reads and a slew of enhancements to the Contig and Align to […]

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Use Database | Auto-Annotate Sequence to annotate prokaryotic genomes

The continuing advances in Next Generation Sequencing have made it relatively low cost to sequence prokaryotic genomes. Many scientists are embarking on large projects to sequence multiple related genomes. These might be clinical isolates of the same species exhibiting different pathogenetic properties, environmental isolates from different sites, or a study over time of the changes […]

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Scan For… Missing Primers: Automatic Primer Binding Site Display in MacVector 17.0

One new feature in our upcoming MacVector 17 release is the ability to automatically display primer binding sites in each DNA sequence that you open. Here’s an example of a couple of primers displayed on the popular pET 47b LIC cloning vector on each side of the LIC cloning site. The image shows how MacVector […]

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Use Database | Auto-Annotate Sequence to annotate prokaryotic genomes

The continuing advances in Next Generation Sequencing have made it relatively low cost to sequence prokaryotic genomes. Many scientists are embarking on large projects to sequence multiple related genomes. These might be clinical isolates of the same species exhibiting different pathogenetic properties, environmental isolates from different sites, or a study over time of the changes […]

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