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This can be used for two different functions, Sequence Confirmation and cDNA Alignment. First there is a built-in function called Align To Reference. Sequence Assembly functionality in MacVector is now provided by two modules. You can create publication quality graphical outputs of the alignments and view pairwise combinations of the sequences in aligned and matrix formats.
#Assemble a plasmid macvector manual
A full-featured editor lets you make manual adjustments to the alignments and view them using a wide variety of customizable color schemes. You can align unlimited numbers of DNA or Protein sequences using the ClustalW algorithm built in to MacVector.
Even without an Internet connection, MacVector can align sequences against any folder on your hard drive using a FastA algorithm, allowing for "local" database searches.
#Assemble a plasmid macvector download
The built-in BLAST interface lets you submit multiple BLAST jobs using DNA or Protein sequences and then download any matching sequences by selecting them from a hit list. You can directly search Entrez for DNA or Protein sequences based on features, authors, keywords etc and directly download them into MacVector, complete with all features and annotations. MacVector has built-in Internet connectivity to the NCBI BLAST and Entrez databases. A comprehensive Protein Analysis Toolbox provides a wide variety of algorithms for analyzing the composition of proteins and presenting the results in graphical and tabular formats. Protein sequences can be reverse translated into DNA, compared using "Dot-Plot" analysis and scanned for Proteolytic cleavage sites and amino acid sequence motifs. A Coding Preference toolbox lets you select a variety of algorithms to graphically scan a DNA sequence for likely protein coding open reading frames. MacVector provides a wide variety of useful DNA analysis tools, including base composition analysis, Restriction Enzyme searches, DNA Subsequence searches and "Dot-Plot" comparisons between DNA:DNA and DNA:Protein sequences. The interactive interface clearly shows which potential primers may have secondary structure problems, alternate binding sites or other characteristics that might impact their use in experiments. You can design primers for either PCR or Sequencing/Hybridization probes using a variety of primer design functions, including an interactive manual design interface along with several scanning functions such as the popular Primer3 algorithm. Because MacVector includes custom feature appearance information when annotating the sequence, you can use this to maintain a carefully curated set of your favorite genes and sequences each with a graphical appearance that best suits your needs. You can scan an unannotated or partially annotated sequence against a folder on your hard drive and MacVector will identify matching features in sequences in the target folder and add them to your sequence. With a few simple clicks from an intuitive graphical interface, you can replicate your biological manipulations at the bench to create new molecules with the correct sequences across the cloning and recombination junctions. MacVector supports the popular Gateway, TOPO TA and Zero Blunt cloning technologies from Invitrogen.
#Assemble a plasmid macvector mac os x
MacVector uses the native Mac OS X Quartz graphics to generate publication quality images that can be scaled to any size with no loss of resolution. In addition to directly editing sequences and features/annotations, MacVector has an intuitive "Click Cloning" graphical interface that lets you easily replicate laboratory cloning experiments to create new molecules. MacVector can read and write DNA and Protein sequences in most popular file formats. If you already own an older copy of MacVector, and would like to know what new features have been added since the version you own, you can find that information on this summary page.
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