Question: Bacterial Annotation
2
gravatar for Shaun
7.2 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 • 2.1k views
ADD COMMENTlink written 7.2 years ago by Shaun20
1

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

ADD REPLYlink written 7.2 years ago by Michael Dondrup45k
1

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

ADD REPLYlink written 7.2 years ago by Michael Dondrup45k
1
gravatar for mikmaksi
7.1 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 written 7.1 years ago by mikmaksi60
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1370 users visited in the last hour