crossing multiple annotations and validation with RNA-seq

Question

[guillaume.rbt]

Hi,

I'm working on a fungus, on which several annotations has been made on the same reference genome.

I would like to compare those annotations and also cross them with RNA-seq data, to have the more accurate possible set of genes.

Would anyone know methods and/or tools that would allow me to do this kind of thing?

Thanks in advance,

Guillaume

[shunyip]

Not sure if there are any dedicated tools for these purposes. Maybe you can just do some overlapping between each annotations and perform some transcriptome assembly to see how they work?

[guillaume.rbt]

Thank for your response. Do you think I should do a de novo transcriptome assembly, or use the reference? Would you know a good tool for transcriptome assembly?