I'm looking for database to download reference transcriptome of different species . Does someone have a recommendation?
Duplicate of Looking for database to download transcriptom annotation file ?
You can get reference gene annotation from NCBI, Ensembl, UCSC, and iGenome amongst others.
You can use the NCBI web interface.
Search for sequences of the species you want and add "biomol_rna[PROP]" to the filters.
In the top-right corner above the results click on: Send To > File > Format: Fasta (or other format like GFF) > Create File.
I would recommend going to NCBI and using their reference transcriptome - https://www.ncbi.nlm.nih.gov/genome/?term=drosophila%20melanogaster%20transcriptome
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