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

Match details

Record ID: AF330636.1
Database: nt Go to original record
Description: Plant DNA excision vector pX6-GFP, complete sequence.
Taxon: Plant DNA excision vector pX6-GFP
Original size: 14103 bp

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Method: QL-CON-00-014 Go to GMOMETHODS record
View in JRC GMO-Matrix
Description:Qualitative PCR method for detection of the junction between the nos promoter and the neomycin phosphotransferase II gene
Target:P-nos-nptII

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Predicted amplification details:
Mismatches Gaps From To Strand Amplicon size
0 0 2496 2658 + 163 bp
Amplicon: 163 bp 
1     ttcccctcgg tatccaatta gagtctcata ttcactctca atccaaataa
51    tctgcaccgg atctggatcg tttcgcatga ttgaacaaga tggattgcac
101   gcaggttctc cggccgcttg ggtggagagg ctattcggct atgactgggc
151   acaacagaca atc

View other 978 matches with an identical amplicon

Primers and probe alignment:
Primer/Probe % Identity Length Mismatches Gaps From To Score
primerA 100.0 23 bp 0 0 1 23 2.01e-10
primerB 100.0 22 bp 0 0 163 142 6.81e-10
probe 100.0 25 bp 0 0 140 116 1.74e-11

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.