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2.7 years ago
Hi all,
I have a list of genes which are differentially expressed between two experimental groups in mouse, some of which are long non-coding RNAs (lncRNAs). I am looking for experimental and predicted interactions of these lncRNAs.
The prediction tools need the sequences in fasta format. When retrieving fasta files of lncRNAs in Gencode, as expected, some lncRNAs have more than one transcript. I would like to know which transcript is best to use, whether there is a predominant or standard transcript, or for example, selecting the transcript with the greater length for each lncRNA.
Thank you!
