Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Question: Where to download gff3 file for EcoCyc data?
0
gravatar for O.rka
13 months ago by
O.rka • 70
O.rka • 70 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 • 516 views
ADD COMMENT • link •
modified 11 months ago by tdmurphy • 160 • written 13 months ago by O.rka • 70
0
gravatar for tdmurphy
11 months ago by
tdmurphy • 160
tdmurphy • 160 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 COMMENT • link written 11 months ago by tdmurphy • 160
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 949 users visited in the last hour