Exact(8)
The single band produced during Southern analysis of RH2 genes might be explained by the lack of a cut site between the tandem duplicates.
Reads not beginning exactly at a cut site are removed.
(C ) Find a cut site >300 bp away from the mutation.
A 5' adaptor containing a cut site for the type II restriction endonuclease MmeI was ligated to the cDNA.
Because the 5′ of each tag corresponds to a cut site for NlaIII, the corresponding 4 bp site (CATG) was appended to the beginning of each tag.
The HiCUP pipeline includes additional filters when following the double-digest protocol, since the start of every read should now correspond to a cut site (in contrast to sonication, which is essentially a random fragmentation process).
Similar(52)
Polymorphism markers can occur through disruption to a cut-site, leading to differential isolation, or through SNPs within the sequence reads of tags that are present in both individuals.
However, we could not find a restriction enzyme with a single cut site for the sites A, D, H, and J within the PCR-1 products.
Unique polydT-NV RT-primers were used per replicate, containing Solexa sequences separated by an abasic furan (that serves as an ApeI cut site), a 6 nt degenerate region and a 6 nt index sequence to allow for multiplexing during sequencing.
The method involves the introduction of a novel cut site into a specific genomic location, followed by the integration of an edited sequence into the same location in a scarless manner.
The 6.3 kb DNA fragment was amplified with primers DC464 containing a BamHI cut site and DC466 containing a SphI cut site using pDCW142 as a template.
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