annotations

[roshanbernard]

I use annotations pipelines like RAST or NCBI or JGI to get the bacterial genome annotation...


however, if there is any mutation among the promoter of the gene, does the servers annotated them or just disregards it..

anyone have idea about this...??

[maasha]

I am pretty sure RAST doesn't annotate such. Try the RAST mailing list - they are most helpful.

[roshanbernard]

Hi,

i got the reply from RAST team///i am pasting the reply below....


Unfortunately, the only type of promoter sites RAST can recognize
are Ribosomal Binding Sites. RAST cannot yet recognize any type of promoter site
other than the RBS.

Hence, mutations in the upstream region will not have any impact on RAST's
gene-calls or annotations unless they weaken the RBS site so much
that the correct START site fails to be found.

[roshanbernard]

and thanks a lot masha for ur reply..:-)..