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Main Data Set
Postgres Chado Database Dump
	Chado database (ftp://ftp.flybase.net/releases/FB2008_09/psql)
Drosophila Data
	Current FTP repository (ftp://ftp.flybase.net/releases/FB2008_09/) Current Chado-XML repository (ftp://ftp.flybase.net/releases/FB2008_09/chado-xml) Current Reporting-XML repository (ftp://ftp.flybase.net/releases/FB2008_09/reporting-xml) FTP archive (ftp://ftp.flybase.net/genomes/)
Synonyms
Item Chado XML Reporting XML Other FlyBase Synonyms fb_synonym_fb_2008_09.tsv.gz
Genes
Item Chado XML Reporting XML Other Genes data download download Genetic Interaction table gene_genetic_interactions_fb_2008_09.tsv.gz FBgn <=> DB Accession IDs fbgn_NAseq_Uniprot_fb_2008_09.tsv.gz FBgn <=> Annotation ID fbgn_annotation_ID_fb_2008_09.tsv.gz FBgn <=> GLEANR IDs fbgn_gleanr_fb_2008_09.tsv.gz FBgn Exons <=> Affy1 fbgn_exons2affy1_overlaps.tsv.gz FBgn Exons <=> Affy2 fbgn_exons2affy2_overlaps.tsv.gz Genes GO data gene_association.fb.gz Genes map table gene_map_table_fb_2008_09.tsv.gz Gene summaries gene_summaries.tsv.gz Orthologs gene_orthologs_fb_2008_09.tsv.gz
Alleles and Stocks
Item Chado XML Reporting XML Other Allele data download download Stock data download download stocks_FB2008_09.tsv Genetic Interactions allele_genetic_interactions_fb_2008_09.tsv.gz Phenotypic data allele_phenotypic_data_fb_2008_09.tsv.gz
Nomenclature
Item Chado XML Reporting XML Other Species abbreviation list species-abbreviations.txt
Ontology Terms
Frozen Files used for this release of FlyBase
Item Chado XML Reporting XML Other FBbt: (fly_anatomy) fly_anatomy.obo.zip FBdv: (fly_development) fly_development.obo.zip FBcv: (controlled vocab) flybase_controlled_vocabulary.obo.zip GO: (gene ontology) gene_ontology.obo.zip FBbi: (image ontology) image.obo.zip SO: (sequence ontology) so.obo.zip
Current 'Live' Files
Item Chado XML Reporting XML Other FBbt: (fly_anatomy) fly_anatomy.obo FBdv: (fly_development) fly_development.obo FBcv: (controlled vocab) flybase_controlled_vocabulary.obo GO: (gene ontology) gene_ontology.obo FBbi: (image ontology) image.obo SO: (sequence ontology) so.obo
Genomes: Annotation and Sequence
All Sequenced Drosophila Species
	Current FTP repository (ftp://ftp.flybase.net/releases/FB2008_09/) FTP archive (ftp://ftp.flybase.net/genomes/) Release notes
Drosophila melanogaster (Dmel)
	Current Dmel FTP repository (ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/current/) Current Dmel FastA FTP repository (ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/current/fasta/) Current Dmel GFF repository (ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/current/gff/) Dmel FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/)
FASTA
	dmel-all-CDS-r5.12.fasta.gz dmel-all-chromosome-r5.12.fasta.gz dmel-all-exon-r5.12.fasta.gz dmel-all-five_prime_UTR-r5.12.fasta.gz dmel-all-gene_extended2000-r5.12.fasta.gz dmel-all-gene-r5.12.fasta.gz dmel-all-intergenic-r5.12.fasta.gz dmel-all-intron-r5.12.fasta.gz dmel-all-miRNA-r5.12.fasta.gz dmel-all-miscRNA-r5.12.fasta.gz dmel-all-ncRNA-r5.12.fasta.gz dmel-all-predicted-r5.12.fasta.gz dmel-all-pseudogene-r5.12.fasta.gz dmel-all-synteny-r5.12.fasta.gz dmel-all-three_prime_UTR-r5.12.fasta.gz dmel-all-transcript-r5.12.fasta.gz dmel-all-translation-r5.12.fasta.gz dmel-all-transposon-r5.12.fasta.gz dmel-all-tRNA-r5.12.fasta.gz
GFF
	dmel-all-r5.12.gff.gz dmel-all-no-analysis-r5.12.gff.gz
Drosophila ananassae (Dana)
	Current Dana FTP repository (ftp://flybase.net/genomes/Drosophila_ananassae/current/) Current Dana FTP FastA repository (ftp://flybase.net/genomes/Drosophila_ananassae/current/fasta/) Current Dana GFF repository (ftp://flybase.net/genomes/Drosophila_ananassae/current/gff/) Dana FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_ananassae/)
FASTA
	dana-all-CDS-r1.3.fasta.gz dana-all-chromosome-r1.3.fasta.gz dana-all-exon-r1.3.fasta.gz dana-all-gene_extended2000-r1.3.fasta.gz dana-all-gene-r1.3.fasta.gz dana-all-intergenic-r1.3.fasta.gz dana-all-intron-r1.3.fasta.gz dana-all-predicted-r1.3.fasta.gz dana-all-transcript-r1.3.fasta.gz dana-all-translation-r1.3.fasta.gz
GFF
	dana-all-r1.3.gff.gz dana-gff_all_scaffolds-r1.3.tar.gz
Drosophila erecta (Dere)
	Current Dere FTP repository (ftp://flybase.net/genomes/Drosophila_erecta/current/) Current Dere FTP FastA repository (ftp://flybase.net/genomes/Drosophila_erecta/current/fasta/) Current Dere GFF repository (ftp://flybase.net/genomes/Drosophila_erecta/current/gff/) Dere FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_erecta/)
FASTA
	dere-all-CDS-r1.3.fasta.gz dere-all-chromosome-r1.3.fasta.gz dere-all-exon-r1.3.fasta.gz dere-all-gene_extended2000-r1.3.fasta.gz dere-all-gene-r1.3.fasta.gz dere-all-intergenic-r1.3.fasta.gz dere-all-intron-r1.3.fasta.gz dere-all-predicted-r1.3.fasta.gz dere-all-transcript-r1.3.fasta.gz dere-all-translation-r1.3.fasta.gz
GFF
	dere-all-r1.3.gff.gz dere-gff_all_scaffolds-r1.3.tar.gz
Drosophila grimshawi (Dgri)
	Current Dgri FTP repository (ftp://flybase.net/genomes/Drosophila_grimshawi/current/) Current Dgri FTP FastA repository (ftp://flybase.net/genomes/Drosophila_grimshawi/current/fasta/) Current Dgri GFF repository (ftp://flybase.net/genomes/Drosophila_grimshawi/current/gff/) Dgri FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_grimshawi/)
FASTA
	dgri-all-CDS-r1.3.fasta.gz dgri-all-chromosome-r1.3.fasta.gz dgri-all-exon-r1.3.fasta.gz dgri-all-gene_extended2000-r1.3.fasta.gz dgri-all-gene-r1.3.fasta.gz dgri-all-intergenic-r1.3.fasta.gz dgri-all-intron-r1.3.fasta.gz dgri-all-predicted-r1.3.fasta.gz dgri-all-transcript-r1.3.fasta.gz dgri-all-translation-r1.3.fasta.gz
GFF
	dgri-all-r1.3.gff.gz dgri-gff_all_scaffolds-r1.3.tar.gz
Drosophila mojavensis (Dmoj)
	Current Dmoj FTP repository (ftp://flybase.net/genomes/Drosophila_mojavensis/current/) Current Dmoj FTP FastA repository (ftp://flybase.net/genomes/Drosophila_mojavensis/current/fasta/) Current Dmoj GFF repository (ftp://flybase.net/genomes/Drosophila_mojavensis/current/gff/) Dmoj FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_mojavensis/)
FASTA
	dmoj-all-CDS-r1.3.fasta.gz dmoj-all-chromosome-r1.3.fasta.gz dmoj-all-exon-r1.3.fasta.gz dmoj-all-gene_extended2000-r1.3.fasta.gz dmoj-all-gene-r1.3.fasta.gz dmoj-all-intergenic-r1.3.fasta.gz dmoj-all-intron-r1.3.fasta.gz dmoj-all-predicted-r1.3.fasta.gz dmoj-all-transcript-r1.3.fasta.gz dmoj-all-translation-r1.3.fasta.gz
GFF
	dmoj-all-r1.3.gff.gz dmoj-gff_all_scaffolds-r1.3.tar.gz
Drosophila persimilis (Dper)
	Current Dper FTP repository (ftp://flybase.net/genomes/Drosophila_persimilis/current/) Current Dper FTP FastA repository (ftp://flybase.net/genomes/Drosophila_persimilis/current/fasta/) Current Dper GFF repository (ftp://flybase.net/genomes/Drosophila_persimilis/current/gff/) Dper FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_persimilis/)
FASTA
	dper-all-CDS-r1.3.fasta.gz dper-all-chromosome-r1.3.fasta.gz dper-all-exon-r1.3.fasta.gz dper-all-gene_extended2000-r1.3.fasta.gz dper-all-gene-r1.3.fasta.gz dper-all-intergenic-r1.3.fasta.gz dper-all-intron-r1.3.fasta.gz dper-all-predicted-r1.3.fasta.gz dper-all-transcript-r1.3.fasta.gz dper-all-translation-r1.3.fasta.gz
GFF
	dper-all-r1.3.gff.gz dper-gff_all_scaffolds-r1.3.tar.gz
Drosophila pseudoobscura pseudoobscura (Dpse)
	Current Dpse FTP repository (ftp://flybase.net/genomes/Drosophila_pseudoobscura/current/) Current Dpse FTP FastA repository (ftp://flybase.net/genomes/Drosophila_pseudoobscura/current/fasta/) Current Dpse GFF repository (ftp://flybase.net/genomes/Drosophila_pseudoobscura/current/gff/) Dpse FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_pseudoobscura/)
FASTA
	dpse-all-CDS-r2.3.fasta.gz dpse-all-chromosome-r2.3.fasta.gz dpse-all-exon-r2.3.fasta.gz dpse-all-gene_extended2000-r2.3.fasta.gz dpse-all-gene-r2.3.fasta.gz dpse-all-intergenic-r2.3.fasta.gz dpse-all-intron-r2.3.fasta.gz dpse-all-predicted-r2.3.fasta.gz dpse-all-synteny-r2.3.fasta.gz dpse-all-transcript-r2.3.fasta.gz dpse-all-translation-r2.3.fasta.gz
GFF
	dpse-all-r2.3.gff.gz dpse-gff_all_scaffolds-r2.3.tar.gz
Drosophila sechellia (Dsec)
	Current Dsec FTP repository (ftp://flybase.net/genomes/Drosophila_sechellia/current/) Current Dsec FTP FastA repository (ftp://flybase.net/genomes/Drosophila_sechellia/current/fasta/) Current Dsec GFF repository (ftp://flybase.net/genomes/Drosophila_sechellia/current/gff/) Dsec FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_sechellia/)
FASTA
	dsec-all-CDS-r1.3.fasta.gz dsec-all-chromosome-r1.3.fasta.gz dsec-all-exon-r1.3.fasta.gz dsec-all-gene_extended2000-r1.3.fasta.gz dsec-all-gene-r1.3.fasta.gz dsec-all-intergenic-r1.3.fasta.gz dsec-all-intron-r1.3.fasta.gz dsec-all-predicted-r1.3.fasta.gz dsec-all-transcript-r1.3.fasta.gz dsec-all-translation-r1.3.fasta.gz
GFF
	dsec-all-r1.3.gff.gz dsec-gff_all_scaffolds-r1.3.tar.gz
Drosophila simulans (Dsim)
	Current Dsim FTP repository (ftp://flybase.net/genomes/Drosophila_simulans/current/) Current Dsim FTP FastA repository (ftp://flybase.net/genomes/Drosophila_simulans/current/fasta/) Current Dsim GFF repository (ftp://flybase.net/genomes/Drosophila_simulans/current/gff/) Dsim FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_simulans/)
FASTA
	dsim-all-CDS-r1.3.fasta.gz dsim-all-chromosome-r1.3.fasta.gz dsim-all-exon-r1.3.fasta.gz dsim-all-gene_extended2000-r1.3.fasta.gz dsim-all-gene-r1.3.fasta.gz dsim-all-intergenic-r1.3.fasta.gz dsim-all-intron-r1.3.fasta.gz dsim-all-predicted-r1.3.fasta.gz dsim-all-transcript-r1.3.fasta.gz dsim-all-translation-r1.3.fasta.gz
GFF
	dsim-all-r1.3.gff.gz dsim-gff_all_scaffolds-r1.3.tar.gz
Drosophila virilis (Dvir)
	Current Dvir FTP repository (ftp://flybase.net/genomes/Drosophila_virilis/current/) Current Dvir FTP FastA repository (ftp://flybase.net/genomes/Drosophila_virilis/current/fasta/) Current Dvir GFF repository (ftp://flybase.net/genomes/Drosophila_virilis/current/gff/) Dvir FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_virilis/)
FASTA
	dvir-all-CDS-r1.2.fasta.gz dvir-all-chromosome-r1.2.fasta.gz dvir-all-exon-r1.2.fasta.gz dvir-all-gene_extended2000-r1.2.fasta.gz dvir-all-gene-r1.2.fasta.gz dvir-all-intergenic-r1.2.fasta.gz dvir-all-intron-r1.2.fasta.gz dvir-all-predicted-r1.2.fasta.gz dvir-all-transcript-r1.2.fasta.gz dvir-all-translation-r1.2.fasta.gz
GFF
	dvir-all-r1.2.gff.gz dvir-gff_all_scaffolds-r1.2.tar.gz
Drosophila willistoni (Dwil)
	Current Dwil FTP repository (ftp://flybase.net/genomes/Drosophila_willistoni/current/) Current Dwil FTP FastA repository (ftp://flybase.net/genomes/Drosophila_willistoni/current/fasta/) Current Dwil GFF repository (ftp://flybase.net/genomes/Drosophila_willistoni/current/gff/) Dwil FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_willistoni/)
FASTA
	dwil-all-CDS-r1.3.fasta.gz dwil-all-chromosome-r1.3.fasta.gz dwil-all-exon-r1.3.fasta.gz dwil-all-gene_extended2000-r1.3.fasta.gz dwil-all-gene-r1.3.fasta.gz dwil-all-intergenic-r1.3.fasta.gz dwil-all-intron-r1.3.fasta.gz dwil-all-predicted-r1.3.fasta.gz dwil-all-transcript-r1.3.fasta.gz dwil-all-translation-r1.3.fasta.gz
GFF
	dwil-all-r1.3.gff.gz dwil-gff_all_scaffolds-r1.3.tar.gz
Drosophila yakuba (Dyak)
	Current Dyak FTP repository (ftp://flybase.net/genomes/Drosophila_yakuba/current/) Current Dyak FTP FastA repository (ftp://flybase.net/genomes/Drosophila_yakuba/current/fasta/) Current Dyak GFF repository (ftp://flybase.net/genomes/Drosophila_yakuba/current/gff/) Dyak FTP archive (ftp://ftp.flybase.net/genomes/Drosophila_yakuba/)
FASTA
	dyak-all-CDS-r1.3.fasta.gz dyak-all-chromosome-r1.3.fasta.gz dyak-all-exon-r1.3.fasta.gz dyak-all-gene_extended2000-r1.3.fasta.gz dyak-all-gene-r1.3.fasta.gz dyak-all-intergenic-r1.3.fasta.gz dyak-all-intron-r1.3.fasta.gz dyak-all-predicted-r1.3.fasta.gz dyak-all-transcript-r1.3.fasta.gz dyak-all-translation-r1.3.fasta.gz
GFF
	dyak-all-r1.3.gff.gz dyak-gff_all_scaffolds-r1.3.tar.gz
Transcripts and Polypeptides
Item Chado XML Reporting XML Other Transcript data download