Question: Where to download gff3 file for EcoCyc data?
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gravatar for O.rka
11 months ago by
O.rka70
O.rka70 wrote:

I'm looking for a gff3 file with EcoCyc IDs. Do I need to just download the version from Ensembl and then convert the IDs? Alternatively, is there a flat file from EcoCyc that has the positions of all of the genes in E. coli?

ecoli genes assembly gff3 • 434 views
ADD COMMENTlink modified 9 months ago by tdmurphy110 • written 11 months ago by O.rka70
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gravatar for tdmurphy
9 months ago by
tdmurphy110
tdmurphy110 wrote:

I think EcoCyc uses the same IDs as EcoGene (EG#####), which are available on the GenBank and RefSeq annotations at NCBI. Try the "Download" links at the right from this page: https://www.ncbi.nlm.nih.gov/assembly/GCF_000005845.2

Both GFF3 and flatfiles are available.

ADD COMMENTlink written 9 months ago by tdmurphy110
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