Ensembl Fruitfly

Karyotype

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About the Fruitfly genome

Assembly and Annotation

The data displayed on the Ensembl Fruitfly site is a compendium of data from different sources: The euchromatic sequence is based on BDGP assembly release 4, whereas the annotations of the euchromatic regions displayed in Ensembl are based on data imported from flybase rel.4.2.1 (dated 20050903).

For the heterochromatic regions sequence was provided by DHGP (release 3.2). The annotations on the heterochromatin are imported from gff-files published by flybase (release 3.2b2, dated 20050110). No additional gene build has been carried out, however repeats, blast hits from the Swall database and protein features have been computed through the Ensembl pipeline.

We have included Drosophila into the Ensembl system to allow people to access the Fly genome through the Ensembl user interface (both for visualisation and data mining) and to provide cross-species integration throught our comparative genomics resources (such as homologous gene links and family pages).

The canonical data for Drosophila is managed at FlyBase and we are working in partnership with them to provide feedback on their resources.

What's New in Ensembl 39

Drosophila melanogaster News

There is no Drosophila melanogaster-specific news this release.

General News

• Bug fixes
  In order to fix some problems with the store() method in Gene and Transcript, DBEntryAdaptor and AttributeAdaptor now require a gene/transcript/translation dbID rather than object as one of their arguments (please see POD for details).
• Multiple versions of genes
  The schema and API have been changed to allow multiple versions of genes, transcripts and exons, for better integration with Otter (the Ensembl-based database schema used as a backend for Havana).
  Read more...
• New MLAGAN groups
  A new 3-way MLAGAN Primate group has been created, containing Human, Chimp and macaque.
  Read more...
• Compara - whole genome alignments, syntenies and families
  

  Whome Genome Alignments.
  Read more...

• Gene Homology Trees
  

  Orthologues/paralogues are now based on gene trees, which has required a number of changes in the compara schema and API.

  3 new tables have been added.
  Read more...

More news...

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