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Functional domain analysis of protein sequences using InterProScan
Read more: Functional domain analysis of protein sequences using InterProScanThere’s a new tool in MacVector 15 that 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…
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Create your own Primer Database.nsub from an Excel spreadsheet
Read more: Create your own Primer Database.nsub from an Excel spreadsheetWouldn’t it be great if there was an easy way of converting that huge primer collection you have into a format that MacVector can use? Well, luckily there is! There is a utility called “Primer Converter” that you can download from our website. To use the utility you first need to get your primers into…
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Use Analyze->Primer Database Search to scan sequences for primer binding sites
Read more: Use Analyze->Primer Database Search to scan sequences for primer binding sitesIt’s easy to keep track of all your primers using a MacVector subsequence (.nsub) file. We even ship MacVector with a starter file called “Primer Database.nsub” that you can find in the /Applications/MacVector/Subsequences/ folder. If you choose Analyze | Primer Database Search… and use this default file to search pUC19, you’ll find many of the…
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Batch auto annotation of blank sequences with MacVector and AppleScript
Read more: Batch auto annotation of blank sequences with MacVector and AppleScriptOver the past few releases we’ve been making more MacVector tools to be scriptable with AppleScript. The latest is Auto Annotation. Auto Annotation is a great tool for curating your sequences. For example if you receive a unannotated sequence then you can scan it against other sequences to find. Blasting an unknown sequence, fetching the…
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MacVector For Windows update
Read more: MacVector For Windows updateIt’s been some time since since the last update about MacVector for Windows, although development has certainly not been quiet. Here’s some screenshots. Graphical Map Sequence Editor Automatic Restriction Enzyme and ORF Analysis Primer Design Cloning Clipboard
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Using the Primer Database to store your lab’s collection of primers
Read more: Using the Primer Database to store your lab’s collection of primersMacVector’s Primer Database allows you to save and retrieve primers from a Primer Database with the Primer3 and Quicktest Primer tools. You can also scan sequences for potential primer binding sites using Primer Database Search. The tool comes with a starter database of primers, but you can use existing subsequence files or import primers from…
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Viewing external database entries for features in a sequence.
Read more: Viewing external database entries for features in a sequence.Sequences, or regions of sequences, can be linked to external databases. For example an entire sequence entry or for when annotation tools are used to annotate proteins with domain or motif information (e.g. InterProScan available in MacVector 15). Very useful for when you want to view more detailed or updated information. Within the Genbank specification,…
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Happy Holidays from all of us at MacVector…!
Read more: Happy Holidays from all of us at MacVector…!We wish you a happy, healthy and rewarding New Year!
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Optimizing the Reverse Translation function
Read more: Optimizing the Reverse Translation functionThe Analyze | Reverse Translation menu option lets you create a DNA sequence from a Protein sequence, reverse translated using a specific Genetic Code (by default, the Universal Genetic Code). The default option creates a DNA sequence with N’s and other ambiguities reflecting the degeneracy of the genetic code. This is great if you want…
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Tear-off Result Window Tabs: make viewing results easier.
Read more: Tear-off Result Window Tabs: make viewing results easier.All analysis results for an individual sequence are collected into a single tabbed result window to reduce window clutter. However, there are times when it is very convenient to have results displayed in side-by-side windows. For example, if you run a dot plot you can zoom in to view sections of the comparison by drag-selecting…
