Question: Mouse Protein Homologs Of 380 Drosophila Genes
gravatar for supernate88
7.1 years ago by
supernate880 wrote:

I need to make a single spreadsheet containing the following:

Column 1: A list of 380 Drosophila genes I obtained from an RNA-seq experiment.

Column 2: The protein products of each of the 380 Drosophila genes.

Column 3: The mouse gene orthologs of the Drosophila genes.

Column 4: The mouse protein orthologs of the Drosophila genes.

Columns 5 & 6 : The amino acid sequence identity and E-value of the each of the mouse protein homologs.

I have tried to use flymine to make a single list containing the aforementioned information for weeks, and most operations I try to do on the site cause it to crash. Any help you can give would be appreciated, as I have resorted to using flybase to find each Drosophila amino acid sequence, then blasting it in Uniprot and copying and pasting the resulting alignment information into a spreadsheet. I know there must be a relatively easy way to make the list I need, and the method I am using now is so stupid and inefficient that it is driving me a little crazy.

Thank you for your help!


ADD COMMENTlink modified 7.1 years ago by fransua390 • written 7.1 years ago by supernate880
gravatar for fransua
7.1 years ago by
fransua390 wrote:

it is not exactly what you asked for, but you may be able to build most of your query through biomart: just paste the IDs of your 380 Drosophila genes in the filter tab.

ADD COMMENTlink written 7.1 years ago by fransua390
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: 1013 users visited in the last hour