On the Phytozome locus page for the unknown gene, the “UniProt” icon was selected. There, we learned more about the gene’s predicted biological process, cellular component, and molecular function. Under Function, “View the complete GO annotation on QuickGO ...” was selected and studied as well.
Our unknown gene’s DNA-level similarity to other genes was compared by performing a Nucleotide BLAST with the “Nucleotide collection (nr/nt)’ database and the BLASTN algorithm. The algorithm parameters were set: Max target sequences to 1000 and E threshold to 1. This search strategy was saved. In the output, repetitive sequences in noncoding regions, sequences that match all or most of our gene’s exons, and strongly conserved regions were noted. The species the matching sequences came from were also noted.
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