Serial Cloner is a Molecular Biology software that provides tools with an intuitive interface to assists you in DNA cloning, sequence analysis and visualization. Serial Cloner now handles Features / Annotations, which has been the most requested enhancement. User can annotate any sequence portion or use the automatic scan to detect common features.

Serial Cloner can read and write DNA Strider-compatible files and also import or export files in FASTA format. Also new in version you have the possibility to read VectorNTI and ApE files with their features as well as pDRAW32 sequences. Genbank/EMBL files can also be read or imported from internet using the included web interface. Powerful graphical display tools and simple interfaces help the analysis and construction steps in a very intuitive way.

All the tools you need to analyze and manipulate your sequences are available in an all-in-one-window concept. All key functions are accessible through a compact interface. Serial Cloner also lets you build text restriction map and quickly format it to add multi-frame translation or only show single cutters for example. The graphic map of Serial Cloner is really Graphic as you can easily select and extract a feature, a fragment or show single, double or multiple cutter all in the same window.

Serial Cloner will assist you in setting-up new sub-cloning projects and in preparing the electronic versions of your constructs. In addition to the classical restriction maps - both graphic and text-based - or site usage windows, you will be able to quickly set-up a PCR-based amplification or prepare synthetic adaptors. shRNA constructions based on pre-defined scaffolds are also automated.

You can assemble fragments, obtained by PCR, adaptor/shRNA synthesis or simply by graphically selecting fragments between restriction sites. Just select, blunt if you need, and click the Ligate button. An additional interface allows easy Gateway(tm) cloning for both BP and LR reactions.

Finally, Serial Cloner provides an interface to align two sequences using a local algorithm or the BLAST2Seq NCBI server and extract a consensus a virtual cutter, a web browser with instant import of NCBI/EMBL entries and a silent restriction map generator. Serial Cloner also allows to quickly prepare Fasta-formatted text or files to submit a multi-alignement request to Clustal.

What's New in This Release: [ read full changelog ]

· [NEW] Define user's Feature Collection
· [NEW] Handling of amino acid-based Features
· [NEW] Import external Features collections (Serial Cloner Format, Generic table format, ApE format)
· [NEW] Export Features Collections
· [NEW] Export Sequences in GenBank format (with Features)
· [NEW] Directly send BLAST request to NCBI.
· [NEW] Open degenerate Fasta sequences
· [NEW] A companion Software to Reset Serial Cloner Preferences in case of problem.
· [NEW] A companion Software to transform MacVector files to Genbank format compatible with Serial Cloner (from Davide Cittaro)
· [ADDED] Search for a peptide sequence using the Find window.
· [ADDED] Display Features in the Sequence Map window.
· [ADDED] Scan for Features directly in the Sequence Map window
· [ADDED] Create a Feature from a translated sequence
· [ADDED] New "Copy Formatted (Full Seq + Features)" menu to copy the Sequence as formatted in the Sequence Window (Copy More? menu)
· [ADDED] New "Copy as Genbank (Full Seq + Features)" menu (Copy...