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Finally, the exonized transcripts were constructed by joining the sequences.
The B centromere minimal map was created by joining the sequences of the TD markers in the order shown in Table 1, with 200 Ns separating each marker sequence.
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We used a concatenated DNA sequence obtained by joining the gene sequences that are commonly present in many bacterial genomes.
As previously described [ 41], we prepared an artificially fused genomic DNA sequence for putative chimeras by joining the genomic sequences of the 5′ and 3′ partners.
For further analyses, a hybrid sequence (labelled PF14_052x) was constructed by joining the two sequences.
Then, iteratively, larger clusters are formed, by joining the closest sequences and/or clusters.
Splice site junctions were determined by joining the end sequence of the first exon with the beginning of the next exon using standard SQL functions.
Chromosome sequences were constructed by joining the regions of BAC sequences according to their orientation and position of overlap, envisioned as single in-silico recombination events between the overlapping regions of BAC pairs.
The GFP-luciferase fusion constructs were generated by joining the GFP and firefly luciferase sequences by overlapping PCR, followed by cloning of the fusion PCR fragments into the Bam HI site in pREP41, as above.
Interestingly, a virtually identical nucleotide sequence can be assembled from the O. sativa genomic sequence by joining the first exon of Os12 g08340 and the second exon of Os12 g08310.
Because the entire sequence was too long to achieve high-quality readouts, we created a chimera sequence by joining the two ends which were readable.
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