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These observations raise the possibility that the 3 truncated M. trossulus F-orf-vd1 sequences might represent sequencing errors.
CREMP proteins might also be thousands of residues long, and hence the various EST and contig sequences might represent fragments of a single protein.
These aligned sequences might represent siRNA candidates.
Many of these sequences might represent fragmented transcripts.
Alternatively, these sequences might represent plant plastid sequences.
Thus, both sequences might represent bona fide Gif and Tcn1 orthologs.
Similar(45)
This observation suggests that the fusion protein sequence might represent a misannotation of two different genes physically adjacent to one another on a chromosome.
The fourth sequence might represent a functional MIP encoding gene, but was situated in a short contig interrupted by a large sequencing gap after the identified exon and could therefore not be included in the analysis (referred to as partialNIP#1).
A small sample (i.e. a single short sequence) might represent a region of the genome that happens to be anomalous in some way – as the result of mutational saturation, selection, GC bias or whatever – and it would simply be good scientific practice to obtain further samples from different genomic regions, in hopes of integrating over as much local misinformation as possible.
The segregating sites within Group 1 were considerably different than the segregating sites in Group 2, implying that separate evolutionary forces might be shaping this variation and that Group 1 sequences might be representing non-functional variants.
They are bordered by repeated sequences that might represent potential composite transposons when the repeats are homologous insertion sequences.
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