Download mRNA fasta sequence for all proteins in the escherichia coli mg1655 genome

Question

[Mark]

Hi,

I am looking for a way to download the fasta sequence of all protein coding mRNA in the escherichia coli genome.

Does anyone know a simple way to do this. I would be most comfortable with python but can use a shell script.

thank you in advance

Answer 1

[JC]

No need for python or any script:

1. Go to https://www.ncbi.nlm.nih.gov/nuccore/NC_000913.3
2. Select "Send to" -> "Coding sequences"
3. Select FASTA for nucleotides or proteins
4. Click on "Create File"

[Mark]

thank you, that was very helpful.

Answer 2

[GenoMax]

Another option. Download CDS sequences directly from NCBI FTP site. If you need translated proteins then those are available as well.