Question: Conservative sequence search from same organism of different species?
gravatar for ganeshram
16 days ago by
ganeshram0 wrote:

Hi everyone!

Is there any way to search a conservative sequence(consensus sequence) of a different organism or same organism with different species?

sequencing forum • 80 views
ADD COMMENTlink modified 16 days ago by Istvan Albert ♦♦ 84k • written 16 days ago by ganeshram0

This is a rather open ended question. Do you have specific sequences/length in mind or not. There are already databases like CDD at NCBI or other databases of non-coding conserved sequences. Homologene database at NCBI is focused on conservation of gene sequences across species.

ADD REPLYlink written 16 days ago by genomax87k

If you think about your question you'll realize that it is lacking specificity.

In general for the same organism, the entire sequence is conserved, after all it is the identical organism. A variant between the two sequences of the same organism, however large, should not be indicative of "lack of conservation". One of the variants or both may be conserved long term.

To find potentially conserved regions across organisms you can blast with your query and you'll be immediately be presented with all the regions in the other organisms that show high similarity.

ADD REPLYlink modified 16 days ago • written 16 days ago by Istvan Albert ♦♦ 84k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 846 users visited in the last hour