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The features that render a transcript a poor target for NMD are not fully characterized.
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To render a soybean transcript differentially expressed (DE), the transcript had to have a log2 fold change greater than or equal to ±1.0 and have atleast 5 mapped reads across all replicates.
Most of these events render the transcript a target for nonsense-mediated mRNA decay (NMD) [ 11].
As such, the nearly identical nucleotide sequences of a number of different Mup gene products, particularly those with a high degree of identity with Mup1 and Mup2, render a number of Mup transcripts virtually indistinguishable by either Northern blot or PCR-based methods.
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