Updated sequence information for this Drosophila species is no longer provided by FlyBase. Gene model annotations for this species are now updated and maintained at NCBI, using the gnomon automated annotation pipeline. See the NCBI page ‘Eukaryotic genomes annotated at NCBI’.
The FlyBase BLAST tool will continue to support queries against the reference genome of this species, but not queries against annotated transcripts or proteins. For the current release, there is no JBrowse or GBrowse view of the gene model annotations for this species.
The FlyBase archived release FB2017_05 includes the last NCBI annotation update for this species that was imported into FlyBase. That sequence data can be accessed from archived gene reports, via the archived GBrowse tool, and via archived bulk-data downloads.
Dox
Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.
For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.
Dsim\Dox appears to have very limited coding potential.
The Dsim\Dox gene is an X-linked sex-ratio meiotic drive distorter. It functions solely as a sex-ratio distorter and is not an essential gene (mutant males have normal sex ratio and spermatogenesis). The Dsim\Dox gene was the precursor for the origin of its autosomal suppressor Dsim\Nmy by a retrotransposition process. Dsim\Nmy is dispensible if Dsim\Dox function is absent. The structures of the Dsim\Dox and Dsim\Nmy genes suggests that an RNAi mechanism may be involved in the suppression of Dsim\Dox by Dsim\Nmy, as the Dsim\Nmy transcript appears to be able to form a stem-loop structure with a dsRNA stem of 345bp.
Dsim\Nmy appears to have arisen by insertion of sequence into the region of the D.simulans genome that is homologous to the CG14370 gene from D.melanogaster (evidence suggests that this occurred in a common ancestor before the split between D.simulans and D.mauritiana). Sequence comparisons strongly suggest that Dsim\Nmy originated from part of Dsim\Dox through retrotransposition. First, there is a tandem duplication of the dinucleotide TA at the insertion site within the sequences homologous to CG14370 and 11bp (TTGTTTAATTT) that are proximal to the 5' end of the Dsim\Dox cDNA are also duplicated in the 5' end of the Dsim\Nmy insert. Second, the three introns of Dsim\Dox are not found in Dsim\Nmy. On the other hand, the 3' end of Dsim\Nmy matches to the genomic region 100-200bp upstream of Dsim\Dox, and so it is unclear whether the precursor mRNA in the retrotransposition event was a bona fide transcript of Dsim\Dox. Other than the leftmost inverted repeat, sequences of Dsim\Nmy and Dsim\Dox are largely colinear, implying that this inverted repeat originated as a secondary duplication after the retrotransposition.
Dsim\Dox appears to have been derived from Dsim\MDox, when a 3833bp insert (designated "Tp3833") appears to have been duplicated and transposed from a sequence of 3549bp (designated "Tp3549") in the 3' region of Dsim\CG32702 (the "Tp3549" region includes the Dsim\MDox gene).
