[Feedback] [Website feedback] Query regarding Paralogs

[Marcela K. Monaco]

Hi Rohit,

The Gramene Mart allows homology information to be exported as attributes,
including the % Identity and '[Species Name] % Identity'. The % identity is
the percentage of amino acids in the currently selected sequence that are
identical in its homologue and '[Species Name] % Identity' is the
percentage of amino acids in the homologue that are identical in the
currently selected sequence. For example, if the species selected is
arabidopsis, and the homologue is in maize, the query sequence is the
Arabidopsis protein and the target is the maize protein. % Identity in this
case is the % of the Arabidopsis protein identical to the maize protein,
and "maize % Identity" is the % of the Maize protein identical to the
Arabidopsis protein. These % identities will only be the same if the length
(number of amino acids) of the Arabidopsis and maize proteins are the same.

Taken and adapted from Ensembl Genomes FAQ.

Marcela

==
Marcela Karey Monaco, PhD
Gramene Project Coordinator
Cold Spring Harbor Laboratory
One Bungtown Road, Williams #5
Cold Spring Harbor, NY 11724
Phone: 516-367-8808
Fax: 516-367-6851


On Fri, Mar 21, 2014 at 3:11 AM, krohit at live.com <krohit at live.com> wrote:

> Rohit Khandelwal  (krohit at live.com) sent a message using the contact form
> at
> http://www.gramene.org/contact.
>
> Hello Sir,
> If I search for paralogs, there are two different columns with header "%
> identity" and "Paralog % identity". What is the difference between both
> terms?
> Also, it shows results in a form in which, suppose, if A has % identity 75
> and Paralog % identity 77 with B, then B has % identity 77 and Paralog %
> identity 75 with A. What does it mean? Please clarify it to me.
> Thanks.
>
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