I am working with RNAseq data from a fungi for which we don't have genome annotation. I have a draft genome and list of predicted genes from Augustus. From RNAseq I have list of genes for which I want to do enrichment analysis. I tried to use DAVID for which I tried to get UniProt ID, but this does not work for me since they don't have option to scan the list. I am also trying BLast2Go but it is taking a long time. I also did InterProscan from which I have Pfam Ids. I tried to convert Pfam ID to UniPro ID but it gives me a list of ID for a Pfam Id.
Can you suggest some better option for my case or can you please pinpoint what I am missing. I will really appreciate your help.I need to graduate soon but this is going nowhere.
Thank you, Ambika