Finding RNA sequence profile for a set of proteins

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2.5 years ago

Confused_human ▴ 30

Hello everyone,

I have translated cds dateset and genomic RNA dateset for an organism. So it means I have Amino acid fasta file and nucleotide fasta file for one organism, which I have downloaded from NCBI genome organism browser.

Now for some specific protein I want to check which RNA sequences are associated for that gene/protein.

What is the right way to do it?

I have locus tag IDs and WP Ids(ProteinIDs) for the set of proteins.

protein RNA • 502 views

ADD COMMENT • link updated 2.0 years ago by Ram 44k • written 2.5 years ago by Confused_human ▴ 30

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Entering edit mode

What do you mean by "check which RNA sequences are associated for that gene/protein"? You want to predict possible RNA-protein interactions between those sets or you want to find out which CDS may be translated from which RNA (the "genomic RNA dataset")?

From what I understand, the two datasets are for the same organism...?

ADD REPLY • link 2.5 years ago by massa.kassa.sc3na ▴ 650

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