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To generate compatible end for the 35S insert vector SUB 3×myc pCAMBIA2300 was digested first with BamHI, made blunt with T4 DNA polymerase, and subsequently gel purified and digested with SpeI generating 35S::SUB:35Syc pCAMBIA235S.
Small DNA molecules (15 20 bp) containing one compatible end were ligated to the appropriate 'sticky end' of the restriction fragments.
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To repair the broken ends, NHEJ processes noncompatible ends into a ligatable form but suppresses processing of compatible ends.
This facilitates processing of damaged DNA ends and subsequent ligation of the compatible ends through the activity of the conserved DNA ligase 4, XLF, XRCC4 compleXRCC4
A 360 bp PCR product containing XbaI/MfeI compatible ends and a unique HpaI restriction site was ligated into XbaI/MfeI-digested pZErO-2E3-2.7 pZErO-2E3-2.7 pZErO-2E3-2.72E3Δ19k-HpaI.
A protocol has also been reported for the cloning of four fragments using a restriction-ligation using type II enzymes that produce compatible ends, such as EcoRI and MfeI [27].
These sequences were subcloned into a pSLfa plasmid [21], previously modified by digestion with BamHI and BglII, followed by ligation of the compatible ends to remove both restriction sites.
Both enzymes produce DNA fragments with compatible ends.
pUASTattB was linearised using BglII (Roche) to provide BamHI compatible ends.
The fragments were subjected to EcoRI digestion and circularized by ligation of the compatible ends, and subsequently randomly sheared.
(For operators which contained these sites, PstI and SpeI, respectively, were used instead to produce compatible ends).
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