I'm trying to know the coding potential of my RNA-seq transcripts by phylogeny
analysis. So I want to generate a FASTA file that includes ORF of my sequence
and 29 other mammalian species. I used"Extract MAF blocks" and "Stitch MAF
blocks" using my RNA-seq data(gtf file from cuffcompare) as intervals. But the
final FASTA file doesn't include my sequence. How can I add my sequence to the
final FASTA so that it includes both the 29 mammalian genome and my sequence?
Thanks in advance.Lyni.
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