Can you, please help me with the following issue:
I have a bed file with coordinates of all introns from the mouse genome (based on GENCODE annotation) and
I want to obtain a fasta file that contains a full intronic sequence for each transcript - i.e. for each transcript separate introns are concatenated in the right order.
Do you have an idea how it can be done? I couldn't find appropriate command in bedtools.
Thank you in advance, Regards, Tim