The findBlastOrfs program can successfully predict single genes that are disrupted by gaps and/or frameshifts where other prediction methods create truncated or split genes.
(a) Not found; (t) Truncated; (s) Split CDSs corresponding to fragments of the original gene not yet characterized as pseudogenes; (p) Pseudogenes; (r) Transposase genes in italics.
IPD complementation relies on the spontaneous amide bond formation between a truncated, or split, IPD of the streptococcal FbaB protein that lacks the C-terminal β-strand (sIPD), and a peptide representing this missing strand (Zakeri et al., 2012).
Exclusion of ribosomal proteins was based on the following: S14 has been shown to be subject to horizontal transfer [ 70], L24 is truncated and split in Fusobacterium nucleatum, S1 is absent/truncated in the Mollicutes subgroup of the low-GC gram-positives, L25, L30, L31, L32, L33 contained a high number of paralogs and/or were absent in several key species.
The important elements of scrummaging - engagement, binding of the front rows and feeding of the ball - have been truncated into a split second.
These errors resulted in a number of changes including truncated, merged, and split genes as well as genes with altered start codons.
URRWXCal2, split and truncated proteins from str.
A core set of 54 CDS is present across all four plasmids, yet many genes are either split or truncated in one or more plasmids.
Up to 37 strain-specific genes were found to be fragments of genes either split or truncated by the insertion of a premature stop-codon ("pseudogenes").
Finally, we do not account for mapping or sequencing errors, library complexity, the ability of algorithms to distinguish between the reads covering both alleles of a heterozygous SV site [ 17], instances of singleton, split, and truncated reads, etc.
