Open reading frame finder (ORF finder) finds all open reading frames of a selectable minimum size in a sequence. It does not assume gene splicing, thus exons will be predicted as separated ORFS.

Gene finders such as GlimmerM, Genscan, FGenes, GRAIL, and GeneMark.HMM predict intron-exon boundaries in a genome sequence. Combination of a number of these programs may be used to predict spliced genes given a genome sequence.