How to download reference transcriptome file of species ?
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Entering edit mode
8.2 years ago
jack ▴ 940

Hi,

I'm looking for database to download reference transcriptome of different species. Does someone have a recommendation?

genome RNA-Seq Assembly • 6.7k views
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8.2 years ago
David Fredman ★ 1.1k

Duplicate of Looking for database to download transcriptome annotation file?

You can get reference gene annotation from NCBI, Ensembl, UCSC, and iGenome amongst others.

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4.0 years ago

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.

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3.1 years ago

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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