Question: Bacterial Annotation
2
gravatar for Shaun
7.9 years ago by
Shaun20
Shaun20 wrote:

I am working on annotating a bacterial genome and this is my first time doing so. I got the genes in the genome but am starting to look at intergenic regions. Any suggestions on good programs for identifying RNAs and promotor sequences?

genome • 2.3k views
ADD COMMENTlink modified 4 months ago by Biostar ♦♦ 20 • written 7.9 years ago by Shaun20
2

related: http://biostar.stackexchange.com/questions/1663/identified-potential-non-coding-rna-and-then

ADD REPLYlink modified 9 days ago by RamRS25k • written 7.9 years ago by Michael Dondrup47k
1

and here: http://biostar.stackexchange.com/questions/6791/how-to-get-promoter-sequences-for-non-model-organisms/6918#6918

ADD REPLYlink modified 9 days ago by RamRS25k • written 7.9 years ago by Michael Dondrup47k
1
gravatar for mikmaksi
7.8 years ago by
mikmaksi60
mikmaksi60 wrote:

Are you planning to submit this, I'm assuming newly sequenced genome, to one of the big databases (e.g. NCBI)? If so then you should definitely ask to get access to their annotation tools [?]here[?]

Otherwise, there are quite a few tools out there. Here are some of them:

http://molbiol-tools.ca/Promoters.htm

http://linux1.softberry.com/berry.phtml (specifically [?]BPROM[?])

[?]BacPP is another one[?]

Hope this helps

ADD COMMENTlink modified 11 weeks ago by RamRS25k • written 7.8 years ago by mikmaksi60
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