Genotyping and primer details


Genotyping and primer details for 081F08 - At1g04780
Line ID 081F08
Locus At1g04780 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr1:1341886 of line 081F08 Chr1:1341886
   
Insertion allele amplicon 8474 - 10bg
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 10bg: 5'-GTTTTATCTGTCTTCCTCCACGAG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr1:1341633
   
Insertion allele amplicon 8474 - 20wp
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 20wp: 5'-TTCACCGAAGAAGTTGGACTAGAT-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr1:1341141
   
Insertion allele amplicon 8474 - KM51
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer KM51: 5'-GATCACTTTCCATTTCGAGAGTTC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr1:1342498
   
wt amplicon (over InsPos) 10bg - KM51
wt amplicon start Chr1:1341633
wt amplicon end Chr1:1342498
wt amplicon size 866 bp
Locus specific primer KM51: 5'-GATCACTTTCCATTTCGAGAGTTC-3'
2nd locus specific primer 10bg: 5'-GTTTTATCTGTCTTCCTCCACGAG-3'
   
Note The data concerning the primers refer to the experimental conditions used in the initial analysis of the alleles. In general, we used 8474 in the PCR and 8409 for sequencing. See the confirmation strategy page for details. For genotyping in the context of DUPLO, we used 8409 as T-DNA primer in PCRs. See the DUPLOdb help page for details.

Last Updated on Thursday, 06 December 2018 16:11