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This recognition preference suggests that distal sequences flanking the K9/K27 consensus "ARKS" motif contribute to H3K27me3 recognition.
The distal sequences in the miRNA:mRNA duplex were scored with revised Gotoh's and Marks' methods [37], [65].
The mechanism by which these distal sequences find each other has been the subject of intense speculation and debate.
Subtelomeres are the most distal sequences of non-repetitive DNA on the chromosome, and have the highest density of genes in the genome [1].
The sequence homology in the 49 nt region (24 nt on each side of the breakpoint nucleotide) of the proximal and distal sequences was analyzed using ClustalW software [19] with default parameters (http://www.ebi.ac.uk/Tools/clustalw2/index.html).html
ClustalW alignment tool was used to estimate the sequence homology, defined as the percentage of homologous nucleotides, in the 49 nucleotides alignment of the proximal and distal sequences surrounding the breakpoints of each mtDNA deletion case (Table S1).
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The HS and FGFR binding domains in FGFs are composed of secondary and tertiary structures formed from distal sequence domains.
Exact molecular basis underlying H3 distal sequence recognition calls for complex structure determination in the future.
Additional ITC titrations using H3K27me3 peptides in shorter H3 frames of 19 34 and 21 32 revealed 3.9- and 7.8-fold binding reduction (Fig. 1F), suggesting that distal sequence motifs other than "ARKS" contribute to H3K27me3 recognition and thus discriminate against H3K9me3.
Lamellar bone was then deposited and from about day 70 onwards, primary osteons filled in the longitudinal tubes lined by the scaffold in a proximal to distal sequence (Gomez et al. 2013).
When the Tatshenshini vacA m distal sequence was compared with the vacA m region of modern strains, the sequence clustered with sequences from m1d isolates identified in North and South American Aboriginal individuals in a study by Yamaoka and colleagues on the presence of H. pylori in the New World prior to Columbus [11] (Fig. 2).
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