Extracting 3' UTR from long read RNA sequencing reads · Biostar

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Extracting 3' UTR from long read RNA sequencing reads

Hi All,

I am having a question regarding long read sequencing. I have sequenced my samples using long read sequencing technology. I have identified multiple isoforms from the data and many of them are with alternative last exons. I have the gtf file of the isofroms. Now, I want to extract the 3' UTR sequences and also want to study its usage among different condition. Since its a long reads, my coverage is not that great. In such scenario what will be the best tool to extract the 3' UTRs and also study its usage among samples.

Thanks

rna-seq utr long-reda

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written 6.2 years ago by peris

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