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Old 03-20-2013, 10:22 PM   #1
bharat_iyengar
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Location: Delhi, India

Join Date: Dec 2012
Posts: 20
Default Drosophila Refseq

NCBI Refseq FTP doesn't have Drosophila sequences.
The problem with Flybase is that there is no single non-redundant database file for the entire transcriptome, but it has individual files for miRNA, ncRNA, miscRNA etc etc.

There is a file called all transctipts but its only mRNA. So I tried combining all these files but there is another problem: Redundancy of sequences. For example the sequence corresponding to the i.d. FBtr0100886 is annotated as mRNA as well as a predicted gene.

Moreover RefSeq ids are not available for all sequences.

Does anyone have a clue where to get the entire Drosophila transcriptome with RefSeq ids
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