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One had a missing nucleotide in the gene that resulted in a truncated protein.
However, the missing nucleotide in the CRP-binding site of pWA64.1 had a tremendous effect.
A single missing nucleotide in an exon can result in a seriously incorrect protein model.
SNP positions that are heterozygous in a line, identical in all lines or contain a missing nucleotide in a line were eliminated from the phylogenetic analysis.
Since the cDNA sequence encodes a full-length protein reconstructed by assembling the exons of the genomic sequence, we speculated that the missing nucleotide in the cDNA clone obtained by Skelly et al. [ 4] might represent a cloning artifact.
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All but one SNP were in regions with homopolymers and were mainly missing nucleotides in M299.
Phylogenetic trees were constructed from 1000 samplings of maximum composite likelihood (MCL) distances by neighbour-joining method with pair-wise deletions for missing nucleotides in MEGA v4.0.
To simplify calculation we set transcript length (including introns) equal to that of the longest transcript, so the total number of nucleotides shown in the Intron/Intron cells is slightly exaggerated (because missing nucleotides in the shorter transcripts are counted as introns); otherwise the computation proceeded as for binary transcript sets.
These omissions were confirmed by analysis of individual sequence differences; the missing nucleotides in the PacBio sequence resulted in frame shifts that were readily identified using GC-Frame Plot [ 15] in Artemis [ 16] and substantiated by inspection of the corresponding amino acid sequences.
In this context, it is worth noting that, due to a missing nucleotide, the gene encoding BVMO8 is disrupted.
In addition, the starting and ending positions could not be "-" (i.e., a missing nucleotide, which would create a bulge structure with no paired base).
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CEO of Professional Science Editing for Scientists @ prosciediting.com