Operon Annotations For Bacterial Genomes?

Question

[Tianyang Li]

Hi,

Are there databases containing operon and gene annotations for bacterial genomes?

Apparently in NCBI or EMBL there are no operon annotations for these bacterial genomes that I downloaded:

• Escherichia coli str. K-12 substr. MG1655
• Prochlorococcus marinus MED4
• Rhodobacter sphaeroides 2.4.1

Answer 1

[Michael]

How about OperonDB? These are afaik automatic predictions, so I would treat them with care. They at least contain your E. coli and Rhodobacter strains , but only different P. marinus strains. If the differences strain matter at all, who knows...

Answer 2

[Asaf]

As was shown several times, genes that are usually transcribed together are sometimes transcribed separately. see http://www.ncbi.nlm.nih.gov/pubmed/19881496 for an example.