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Also see Movie S4. (C) Compatibility of the rod I with the predicted helical stem formed between the precursor sequences of the 5′ and 3′ ends of the 17S rRNA.
Pairwise divergence between the precursor sequences within a precursor group was calculated.
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We detected a highly differentiated SNP only between domesticated and other wild apples in the precursor sequences of miRNA172g and miRNA172h, two miRNAs sharing the same precursor sequences (Fig. 4b).
In order to detect distant homologies between microRNA families that cannot be unambiguously determined from the precursor sequences, we also analyzed the mature microRNAs.
The analysis depended totally on the precursor sequences, and no model of the evolutionary distances between miRNAs was assumed a priori.
Sequences of the mature 16S rRNA are indicated as blue dashed line and the precursor sequences are colored red.
While the PBC analysis pipeline relies totally on the precursor sequences, the miFam classification may have taken certain reference from the similarity between the mature sequences.
The junction sequence between the MTT1 promoter and the precursor sequence of PLA1 is given with the sequence ATGgatatcAAC, using a EcoRV site (gatatc) between the initial ATG of the MTT1 gene and the second codon (AAC) of the PLA1 precursor sequence.
Consistent with this hypothesis, we detect no correlation between the accuracy or robustness of a scrambled junction and the length of its correct pointers (Table S4); however, the junctions between segments 8 and 9 and segments 9 and 10, which are closer to each other in the precursor sequence than the junctions between segments 2 and 3, are much more robust.
According to Friedländer et al. [ 43], the precursor sequence is the consensus precursor miRNA sequence inferred from deep sequencing reads.
The precursor sequence of Sp-NT2 is split into several exons, as is the precursor of Daphnia neurotrophin and Spzs.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com