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  Lift Genome Annotations
 

This tool converts genome coordinates and genome annotation files between assemblies.  The input data can be pasted into the text box, or uploaded from a file.  If a pair of assemblies cannot be selected from the pull-down menus, a direct lift between them is unavailable.  However, a sequential lift may be possible.  Example: lift from Mouse, May 2004, to Mouse, Feb. 2006, and then from Mouse, Feb. 2006 to Mouse, July 2007 to achieve a lift from mm5 to mm9.  

Original Genome: Original Assembly: New Genome: New Assembly:

 
Minimum ratio of bases that must remap:
Minimum chain size in target:
Minimum hit size in query:
Allow multiple output regions:
Min ratio of alignment blocks/exons that must map:
If thickStart/thickEnd is not mapped, use the closest mapped base:

 For descriptions of the supported data formats, see the bottom of this page.
Data Format:

 Paste in data:

 Or upload data from a file:


  Data Formats
 
  • Browser Extensible Data (BED)
  • Genomic Coordinate Position
                chrN:start-end

    •   Command Line Tool
     

    To lift genome annotations locally on Linux systems, download the liftOver executable and the appropriate chain file. Run liftOver with no arguments to see the usage message.