Hello,

I am using Blast2Go to retrieve the GO terms for a list of genes. I used protein sequences and ran Blast. Then I ran InterPro Scan and merged the annotations. I got these parameters for each gene:

GO IDs  GO Names    Enzyme Codes    Enzyme Names    InterPro IDs    InterPro GO IDs InterPro GO Names

I want to know should I use GO IDs or InterPro GO IDs. Although both looks same to me. Additionally, I want to select the genes that are transcription factors only. Is there a specific way to do that in blast2go or I have to manually filter the list based on GO Names or InterPro GO Names? Thank you!