Drosophila sechellia (dsec_caf1)

Drosophila sechellia Assembly and Gene Annotation

About Drosophila sechellia

Drosophila sechellia is endemic to (some of) the Seychelles, and was one of 12 fruitfly genomes sequenced for a large comparative study [1]. D. sechellia is useful for research into speciation because mating with D. simulans produces fertile females and sterile males [2]. Ensembl Genomes imports data from FlyBase, who also have much more information about the biology of Drosophila sechellia, and a phylogeny of the 12 sequenced fruitfly species.

Picture credit (Creative Commons BY-NC-SA 2.0 FR): Nicolas Gompel 2008. Image shows a female fly.

Assembly

This is the October 2005 genome assembly of Drosophila sechellia. The 4.9x whole-genome shotgun sequencing was performed and assembly provided by the Broad Institute.

Annotation

Protein-coding and RNA genes were imported from FlyBase, release dsec_r1.3 (FB2017_04).

Repeats were annotated with the Ensembl Genomes repeat feature pipeline. There are: 227,447 Low complexity (Dust) features, covering 17 Mb (10.3% of the genome); 68,547 RepeatMasker features (with the RepBase library), covering 30 Mb (17.8% of the genome); 77,058 Tandem repeats (TRF) features, covering 15 Mb (9.0% of the genome).

Protein domains were annotated with the Ensembl Genomes protein feature pipeline.

EST Alignments

Drosophila sechellia ESTs from dbEST were mapped onto the genome using Exonerate.

References

  1. Evolution of genes and genomes on the Drosophila phylogeny.
    Drosophila 12 Genomes Consortium, Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W et al. 2007. Nature. 450:203-218.
  2. The reproductive relationships of Drosophila sechellia with D. mauritiana, D. simulans, and D. melanogaster from the afrotropical region.
    Lachaise D, David JR, Lemeunier F, Tsacas L, Ashburner M. 1986. Evolution. 40(2):262-271.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

Assemblydsec_caf1, INSDC Assembly GCA_000005215.1, Jul 2008
Database version98.1
Base Pairs157,238,575
Golden Path Length166,577,145
Genebuild byFlyBase
Genebuild methodImport
Data sourceFlyBase

Gene counts

Coding genes16,465
Non coding genes793
Small non coding genes793
Pseudogenes15
Gene transcripts17,277

About this species