Evigene and ORF prediction
Hi all,
I am using Evigene to get the transcriptomes of my non-model organisms. However, based on some of my comparisons, it seems to me Evigene tr2aacds is only takin ATG as a potential start codon.
Does anybody have more experience on this? What is the reasoning behind removing the alternative start codons (TTG, CTG)?
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my first guess would be that Evigene (don't really know that) might be focused on eukaryotic species/genomes/genes and there the ATG is the predominant startcodon, the alternative starts are very very rare in eukaryotes (they tend to be more common in prokaryotes for instance)
EviGene: http://arthropods.eugenes.org/EvidentialGene/evigene/ is for "Evidence Directed Gene Construction for Eukaryotes".