How to extract the sequences of the best orf in blastx?
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6.1 years ago

Hi all I have a blastx between a transcriptome (DNA) and a protein database. I have placed some commands to give me the best ORF as a result and thus delete sequences for further analysis. My question is:   It is possible to extract the sequence of the blastx where he made a match, that is, obtain the transcriptome sequence in the reading frame where he made a match. In NCBI this can be done easily, since it delivers the ORF and then one goes to that sequence that made match. Waiting for your response, thank you very much

PD: my objective in this case is to determine if it is actually present the protein in the transcriptome

Blastx • 1.1k views
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