[SO-devel] GFF3 Specification

[Barry M. <bar...@gm...>]

Hi All,

The GFF3 specification has been updated to version 1.21.  Changes are minor - mostly involve clarification to the wording.  Changes include the following:

	• Clarification of escaping conventions.
	• Explicit requirement that the value of start and end be one-based positive integers.
	• Clarification to the use of quotes in attribute values.
	• Clarification of lines begining with # and exclusion of inline comments.
	• Clarification that the ##gff-version pragma only appears once in a file.
	• Clarification to the ##sequence-region pragma.

The current specification can be found at:
http://www.sequenceontology.org/resources/gff3.html

If you would like to review the changes in version 1.21 they are highlighted in the document:
http://www.sequenceontology.org/resources/gff3_1.21.html

The first meeting of the GFF3 working group was held on February 7th and discussed how to annotate partial features and circular genomes.  This work is ongoing and will ultimately result in proposed updates to the specification and/or best practices guidelines.  

You can follow the development of the GFF3 specification on the SO wiki:
http://www.sequenceontology.org/so_wiki/index.php/Main_Page#Sequence_Ontology_based_file_formats

Thanks to the members of the working group and all the active participation from members of this mailing list for working to maintain and improve the GFF3 specification

Barry

Barry Moore
Research Scientist
Dept. of Human Genetics
University of Utah
Salt Lake City, UT 84112
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(801) 585-3543