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Both ends of the inserted fragments were sequenced.
Following this strategy, sequence information could be obtained for both ends of the inserted DNA.
The sequence of two ends of the inserted gene was also consistent with BamH I site and Sal I site.
Both ends of the inserted sequences showed a 3 base pair (GAA) or 4 base pair (TGTG) microhomology with the 5′ and 3′ breakpoints, respectively.
The ends of the inserted PCR product were sequenced using the primers provided with the cloning kit for additional verification of FIV Ple cloned products.
These results are consistent with previous observations of low frequency stable integration by non-homologous recombination and deletion on the ends of the inserted DNA [ 20, 21, 25], underscoring the need to increase the proportion of stable transformants and to prevent deletion of barcodes.
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After ethanol precipitation, PCR amplifications were performed according to the protocol instructions both with Pwht1 and Plac1 primers for the 5' end and with Pry4 and Pry1 primers for the 3' end of the inserted transgene.
In order to determine the minimal sequence requirements for termination-reinitiation in VP2 expresssion, deletions of increasing size were made from the 5' end of the inserted viral information (Figure 1b).
Variations included partial inversion of the 5' end of the inserted sequence about 20%% (36/195) of inserts where both ends were found by discordant read analysis.
The plasmid was then linearised by complete digestion at the 5′-end of the inserted PCR-product with the NotI restriction enzyme (Fermentas, St Leon-Rot, Leon-Rot, Germany
The plant genomic sequence adjacent to the 3' nos end of the inserted DNA was used as a starting point of a PCR-walking procedure aimed at obtaining the wt sequence at the RR locus in non-GM material [ 21].
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