Question: Annotations in multiple sequence alignments?
0
gravatar for gasparsanchez
8 weeks ago by
University of Barcelona
gasparsanchez0 wrote:

Dear all,

first of all I want to apologize for my lack of knowledge and unfamiliarity with the bioinformatic workflows. I'm looking for a program or online tool that allows to make annotations on individual sequences in an alignment file.

Basically, I need to compare short genomic regions from different populations of the same species, in which small variations at the DNA sequence have caused rearrangements of the exon/intron structure of the genes coded in those regions. So I need to annotate each population's sequence individually and align them so that the mutations causing the rearrangement in each population are easily noticed.

I'd be very grateful for any recommendation.

ADD COMMENTlink modified 8 weeks ago • written 8 weeks ago by gasparsanchez0
1

Jalview is another option you can use.

ADD REPLYlink modified 8 weeks ago • written 8 weeks ago by genomax83k

I'm not that familiar at all, but I'm afraid I'll need to go through it sooner or later... Thank you for your answer!

ADD REPLYlink written 8 weeks ago by gasparsanchez0
1
gravatar for Joe
8 weeks ago by
Joe16k
United Kingdom
Joe16k wrote:

I'm guessing if you're a beginner you aren't all that familiar with LaTeX, but TeXShade is an option. You can take a look at this previous thread:

Is there a command line tool that can take an alignment fasta and input and outputs an image?

ADD COMMENTlink written 8 weeks ago by Joe16k
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: 1058 users visited in the last hour