How can I bulk download transcript sequences?
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8 weeks ago

I have a list of NCBI transcript accessions. I would like to download the sequences for these transcripts in fasta format or any format that is available so that I can run the sequences through RNA folding sotware. Does anyone know of a repository from which I can query and download these sequences?

RNA sequence transcript • 238 views
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You can also use EntrezDirect if you prefer a command line option. (LINK)

For example:

$ cat acc.txt

XM_022318843
XM_022318845
XM_022328847

$ epost -db nuccore -input acc.txt -format acc | efetch -format fasta > file.fa
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Oh nice this works too, thanks!

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Fantastic, this is exactly what I needed. Thanks!

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