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European Union Reference Laboratory for Genetically Modified Food and Feed (EURL GMFF)

Match details

Record ID: CP057760.1
Database: nt Go to original record
Description: Escherichia coli strain RHB16-C07 plasmid pRHB16-C07_2, complete sequence.
Taxon: Escherichia coli
Original size: 280872 bp

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Method: QL-ELE-00-002 Go to GMOMETHODS record
View in JRC GMO-Matrix
Description:Qualitative PCR method for detection of Neomycin phosphotransferase II gene (ISO/FDIS 21569:2005).
Target:nptII

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Predicted amplification details:
Mismatches Gaps From To Strand Amplicon size
0 0 255237 255451 + 215 bp
Amplicon: 215 bp 
1     ctcaccttgc tcctgccgag aaagtatcca tcatggctga tgcaatgcgg
51    cggctgcata cgcttgatcc ggctacctgc ccattcgacc accaagcgaa
101   acatcgcatc gagcgagcac gtactcggat ggaagccggt cttgtcgatc
151   aggatgatct ggacgaagag catcaggggc tcgcgccagc cgaactgttc
201   gccaggctca aggcg

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Primers alignment:
Primer/Probe % Identity Length Mismatches Gaps From To Score
primerA 100.0 21 bp 0 0 1 21 3.06e-09
primerB 100.0 21 bp 0 0 215 195 3.06e-09

Related publications:

Petrillo, M., et al. “JRC GMO-Amplicons: A Collection of Nucleic Acid Sequences Related to Genetically Modified Organisms.” Database (Oxford), vol. 2015 bav101, 30 Sep. 2015, doi:10.1093/database/bav101. 

Angers-Loustau, A., et al. “Using the EURL GMFF Online Bioinformatics Resources: A how-to Guide for Practical JRC GMO-Matrix and JRC GMO-Amplicons Case Uses.” European Commission, Ispra, JRC101853, 2016.