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‡Unassigned sequences are those that have significant similarity to known sequences whose functions are unclear.
> -wrap-foot> A total of 56 589 transcripts of S. scrofa were assigned for GO analysis based on matches with sequences whose functions were known previously.
One effective approach in sequence-based function prediction methods is to compare the known sequence to a collection of sequences whose functions are known, whether on a global or a local level.
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The UTRsite is a collection of functional sequence patterns located in 5' or 3' UTR sequences whose function and structure have been experimentally determined and published [ 40].
It simulates the origin of highly repeated DNA sequences, whose function is debated.
In total 8,363 transcripts of C. lectularius were assigned for Gene Ontology (GO) terms based on BLAST matches with sequences whose function is previously known (Figure 4, Table S1).
Gene ontology terms were assigned to CDC genes based on BLAST matches with sequences whose function was previously characterized [ 53].
Due to the number of genome sequencing projects, there is an exponential growth in the number of protein sequences whose function is still unknown.
As discussed above, this transcriptome contains a series of interesting sequences, whose function can now be tested using in vivo or in vitro approaches.
In addition, because it follows only the 80S ribosome protected RNA fragment it does not provide information on the nature of 5′TL sequences whose function are regulatory (i.e., they are not translated).
Functional annotation was difficult due to the fact that the four SFPs either do not show homology via similarity searches or reassemble with sequences whose function is unknown; only Interpro assigns a function in the immune response for AcpC03, as occurs with others insect SFPs.
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