Figure 2

Pfam creation by exon skipping. The alternative exon is shown in red. The two partial Pfam alignments for the RefSeq transcript and the complete alignment for the exon-skipping variant are shown above and below the partial gene structure, respectively. Dashed lines indicate parts of the exon for which a Pfam alignment has been found. (a) NM_024585 has a splice form that skips exon 4 (shown in red), which results in the creation of a new domain. The Pfam scores for the separated parts are far below the threshold score of 17 and, thus, the Pfam is not found for the longer transcript. (b) Skipping exon 2 of NM_139174 results in a new double-stranded RNA binding Pfam.