Reference Genome sequence annotation (Retired): Difference between revisions

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|[http://www.yeastgenome.org SGD]
|[http://www.yeastgenome.org SGD]
|ftp://ftp.stanford.edu/pub/yeast/chromosomal_feature/saccharomyces_cerevisiae.gff
|ftp://ftp.stanford.edu/pub/yeast/chromosomal_feature/saccharomyces_cerevisiae.gff
|?
|-
|Dictyostelium    (cellular slime mold)
|[http://www.dictybase.org dictyBase]
|http://www.dictybase.org/db/cgi-bin/dictyBase/download/download.pl?area=gff3&ID=dicty_gff3.zip
|?
|?
|-
|-

Revision as of 14:10, 14 September 2007

The Reference Genome initiative will foster SO compliant annotations. The sequences will be available using the file format GFF3.


Where to find SO compliant GFF3 annotations for the Reference Genome sequences.
Organism Organization Download Date
Drosophila melanogaster (Fruitfly) FlyBase ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/current/gff 9/12/07
Caenorhabditis elegans (Worm) WormBase ftp://ftp.wormbase.org/pub/wormbase/genomes/elegans/genome_feature_tables/GFF3 ?
Saccharomyces cerevisiae (Budding yeast) SGD ftp://ftp.stanford.edu/pub/yeast/chromosomal_feature/saccharomyces_cerevisiae.gff ?
Dictyostelium (cellular slime mold) dictyBase http://www.dictybase.org/db/cgi-bin/dictyBase/download/download.pl?area=gff3&ID=dicty_gff3.zip ?
Arabidopsis Gramene ftp://ftp.gramene.org/pub/gramene/release19/data/sequence_annotation/gff3 7/16/07
Danio rerio (Zebrafish) ZFIN ? ?
Mouse MGI ? ?
Human ? ? ?
Schizosaccharomyces pombe (Fission yeast) Sanger Centre ftp://ftp.sanger.ac.uk/pub/yeast/pombe/GFF/ 3/16/07
E.coli ASAP https://asap.ahabs.wisc.edu/asap/download_gff3.php?LocationID=&SequenceVersionID=&GenomeID= ?
Rat RGD ? ?
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