Sorry if this seems like a naive and simple question. I have the whole genome of my species as a fasta file and a file containing a list of protein IDs. What is the easiest way to get a file that contains the fasta sequence for each of the proteins in the second file?
-
-
What species?
If it is one of the common genomes NCBI is likely to have the protein fasta file available. -
I can get the protein fasta file. It's more the extracting the sequence for my specific list of protein IDs that I'm struggling with.
It is the monarch butterfly so not a particularly common species.Comment
-
Look into faSomeRecords utility from Jim Kent: http://hgdownload.soe.ucsc.edu/admin.../faSomeRecords I have provided linux link but OS X/Source code is also available at the site.
Provide the list of ID's to faSomeRecords and it will extract the fasta sequence for your ID's, which you can save to a new file.Comment
-
CRISPR/Cas9 sparked the gene editing revolution for both research and therapeutics.1 But this system still showed severe issues that limited its applications. The most prominent were the heavy reliance on PAM sequences, delivery limitations, double-stranded breaks that prompt unintended edits and cell death, and editing inefficiency (both in targeting and in knock-in reliability).
Despite this, “CRISPR helped turn genome editing from a specialized technique into...07-31-2026, 11:01 AM
Comment