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The isolated RNase H domain of M-MuLV reverse transcriptase retained sequence preferences at positions + 1 and − 2 despite prolific cleavage in the absence of the polymerase domain.
Together with known sequences of other DAP kinases this provides an evolutionary model for the expansion and evolution of these kinases within vertebrates, and suggests that the DAP kinases sequence diversion is accompanied by retained sequence features.
Redundant sequences and closely related sequences (of greater than 90% amino acid identity with a retained sequence) were eliminated, yielding 157 sequence-divergent proteins of sizes ranging from 237 amino acids (the β-barrel domain alone) to 8620 amino acids.
IR occurs when a sequence is spliced out as an intron or simply retained and is distinguished from ES because introns do not flank the retained sequence.
Linkage mapping revealed the occurrence of numerous regions with high levels of retained sequence identity between putative homeologs in sockeye salmon.
Given a target length t, the putative trimming to length l would give a length threshold score: The second factor models 'coverage', and provides a linear score based on retained sequence length: This reflects that, given reasonably high-accuracy bases, a longer read contains more information that is useful for most applications.
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We found that the Q169 mutants retained sequence-specific DNA-binding activity in vitro (Figures 5A and B).
The 13 eliminated sequences had an average AT content of 52.6 while the retained sequences had an AT content average of 68.8.
For partially retained sequences two 41-base sequences (20 flanking candidate STEP) were submitted along with the 40-base exon-exon junction.
The size of retained sequences during fractionation is dependent on the accessibility to restriction enzyme sites near the SAR and on the relative concentrations of enzyme.
To discard unique sequences that originated from rRNA, tRNA, small nuclear RNA (snRNA) and small nucleolar RNA (snoRNA), the retained sequences were mapped to Rfam 9.0 and NCBI Genbank database.
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