Features of novel TAR sets
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Overlap of the sets of novel TARs with the mapped 5′ RACE fragments (RACEfrags) and the fraction that are indicated by RNAz as potentially being a structural RNA at a score of 0.95. The set of novel TARs that are associated with known genes has the greatest enrichment for overlap with RACEfrags, while the set of novel TARs in novel transcribed loci has the least. We do not expect the novel TARs assigned to known genes to completely agree with the set of RACEfrags for a number of reasons. The RACEfrags are mostly 5′ extensions of known genes (a small fraction corresponds to internal novel exons), but the novel TARs associated with known genes are not necessarily alternative isoforms of the gene transcript—some may be part of distinct but coregulated RNAs. The set of novel TARs associated with known genes has the largest fraction that potentially corresponds.
