Question: How To Visualize The Corresponding Dna Sequence For A Given Postion Amino Acid
1
gravatar for Tky
6.9 years ago by
Tky1000
Japan
Tky1000 wrote:

I am planing to do some mutagensis and need to change the amino acid at specific position for a given gene.

I am now doing manually by counting the CDS sequence position and then confirm with the protein sequence.

I am asking whether there is any easier way to locate the corresponding codon sequence for a give position amino acid quickly.

In NCBI CCDS, I can visualize the codon sequence when I hover the mouse over an amino acid, but I coundn't see the postion, like this https://www.ncbi.nlm.nih.gov/CCDS/CcdsBrowse.cgi?REQUEST=ALLFIELDS&DATA=11118.1&ORGANISM=0&BUILDS=CURRENTBUILDS

Thank you very much in advance,

amino-acids • 2.7k views
ADD COMMENTlink modified 4.6 years ago by Ibrahim Tanyalcin1.1k • written 6.9 years ago by Tky1000
1
gravatar for Ibrahim Tanyalcin
4.6 years ago by
Belgium
Ibrahim Tanyalcin1.1k wrote:

If you are interested in viewing a codon corresponding to an amino acid number and see the possible point mutations with their annotations, you can do it with I-PV. You will need to first plot your protein product of your gene of interest. Than you can visualize the amino acid position along with codon composition and possible point mutations. Below gif is an example from a protein FOXP2. First I choose an amino acid to display, than hover on it and then open a new window to visualize point mutations. The window also gives a brief explanation of the chemical property of the resulting amino acid: http://i-pv.org/gifs/pointMutation.gif

I hope this helps,

Regards,

ADD COMMENTlink modified 6 months ago by RamRS27k • written 4.6 years ago by Ibrahim Tanyalcin1.1k
1

Hi, thanks for the information and the screen video!! The software is so fancy and the function to show amino acid property is very intuitive and informative. Will recommend to my colleagues as well!

ADD REPLYlink modified 6 months ago by RamRS27k • written 4.6 years ago by Tky1000

Dear Tky,

I appreciate your positive feedback. I'm glad I could help.

Good luck with your research,

ADD REPLYlink written 4.6 years ago by Ibrahim Tanyalcin1.1k
0
gravatar for Pierre Lindenbaum
6.9 years ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum128k wrote:

duplicate of

Amino acid change to Genomic location

ADD COMMENTlink modified 6.9 years ago • written 6.9 years ago by Pierre Lindenbaum128k
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