Furthermore, a negative prediction outcome for genes with multiple PAS may for some cases only be associated with the specific conditions or cell types that were tested – the mature mRNA may simply not contain the target site due its location in an alternative segment – and may in fact be positive in other circumstances.
We previously identified an isoform, termed TMEM16A 0), which is devoid of all alternative segments [11].
However, we also found evidence of a protein lacking all alternative segments and therefore called TMEM16A 0) [11].
In conclusion, TMEM16A 0) may represent a useful backbone, suitable for structure activity relationship studies in which progressive additions of alternative segment regions will help in elucidating their functional roles.
If the alternative ortholog does not exist in the reference dataset, either the alternative segment will match a subregion of the original transcript form (resulting in a low ortholog hit ratio), or there may be no hit at all (resulting in an undefined ortholog hit ratio).
The most apparent difference is a region of ∼2 kbp in which two alternative segments are observed; one in UncleHowie, Puhltonio, and Fang, and a second in PG1, Orion, Scoot17C, Chah, and Colbert (Fig. 10).
In our set, 40% of the sites fell in alternative segments.
This is true both for constitutive as well as alternative segments of 3'UTRs.
However, the lack of alternative segments alters various channel properties such as voltage-dependence and ion selectivity.
Primers were designed such that PCR products would cover alternative segments of an analyzed genotype-specific splicing events.
Human Ano1 has various protein isoforms generated by alternative splicing and has been labelled the four identified alternative segments as a, b, c and d (Ferrera et al., 2009).
