Mapping Between Different Sequences

A new feature in Jalview 2.3 is the ability to map between sequences in different domains, based on alignment, or by the use of explicit mappings provided by databases.

The most familiar mapping is the one used to identify the coordinates corresponding to a displayed sequence when viewing a PDB file associated with a sequence (see "Viewing PDB Files" for more information.

The newest form of mapping supported by Jalview is the correspondence between DNA and protein sequences. This mapping can be imported directly from EMBL and EMBLCDS database records retrieved by the Sequence Fetcher, and allows sequence features to be mapped directly from UniProt das sources to their coding region on EMBL sequence records.

SIFTS Mapping between PDB and UniProt data was introduced in Jalview 2.10