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However, this locus of >2.1 kb has regained a new position adjacent to DT6 in both M. avium subsp. paratuberculosis and M. avium subsp. hominissuis, albeit in opposite orientation (reverse complemented) to each other, as depicted in supplementary figure S2.
Two fragments (RNAi-5' and RNAi-3') of the 5'-region of the ZmPti1a ORF were amplified in reverse complement orientation to each other with the primer pairs PRMMH65 (5'-tagggaggtcgacatgggatgcttttcatgctgc-3') and PRMMH66 (5'-ggagtcaggatccttcactgcagatttcgtccc-3') or PRMMH67 (5'-tagggagggtaccatgggatgcttttcatgctgc-3') and PRMMH68 (5'-ggagtcaagcttcttcactgcagatttcgtccc-3'), respectively.
The latter was designed in reverse complement ("reverse") to allow gene amplification using the other two primers ("forward").
Primer III: TTZ1…Z21TCTAAAAGGAGGTGATAG (Z1-Z21 are the amiR sequence in reverse complement orientation, with the exception that Z11 and Z12 have to be modified to not pair (also no G U non-Watson-Crick pairing) to position X10 and X11, respectively.
Interrogation of the genomic sequence corresponding to Sp-akt-1 and Sp-akt-2 revealed numerous instances of the consensus Runx binding sequence TGT/CGGT (in reverse complement ACCA/GCA) (Fig. 2A), suggesting that both are likely to be direct Runt-1 targets.
Primer II: TTY1…Y21ACAAAAAGATCAAGGC (Y1-Y21 are the amiR sequence in reverse complement orientation).
The most consistent group contained two elements – MPRE20 in reverse complement followed by a small gap, then MPRE57.
An inverted repeat (IR) occurs when two exact or approximate copies of a particular DNA sequence are present in reverse complement orientation.
Numerous examples have been identified in the preliminary results of a more complex analysis where a spanion cluster located in an alternative exon of a gene appears in the 5' UTR region of a different gene in reverse complement orientation.
The hallmarks of mutations associated with replication are a strand asymmetries in reverse complement mutation rates (Lobry 1996) as a result of the difference in the replication of two DNA strands, which are called leading and lagging strands.
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