Genotyping and primer details


Genotyping and primer details for 261E09 - At3g46400
Line ID 261E09
Locus At3g46400 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr3:17075603 of line 261E09 Chr3:17075603
   
Insertion allele amplicon 8474 - 13mg
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 13mg: 5'-TTCAATTCCAAATACTCTTCGTGA-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr3:17075283
   
Insertion allele amplicon 3144 - 14mg
T-DNA primer 3144: 5'-GTGGATTGATGTGATATCTCC-3'
Locus specific primer 14mg: 5'-AAGAAGTTCGACCTACAAACCAAC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr3:17076072
   
Insertion allele amplicon 8474 - PP23
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer PP23: 5'-GAGGAAGAACAAACTGAATGGTTC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr3:17053521
   
wt amplicon (over InsPos) MN62 - PP23
wt amplicon start Chr3:17053521
wt amplicon end Chr3:17076132
wt amplicon size 871 bp
Locus specific primer PP23: 5'-GAGGAAGAACAAACTGAATGGTTC-3'
2nd locus specific primer MN62: 5'-ATGATCTTTTTCATCGCAATATCC-3'
   
wt amplicon (over InsPos) 14mg - 13mg
wt amplicon start Chr3:17075283
wt amplicon end Chr3:17076072
wt amplicon size 790 bp
Locus specific primer 13mg: 5'-TTCAATTCCAAATACTCTTCGTGA-3'
2nd locus specific primer 14mg: 5'-AAGAAGTTCGACCTACAAACCAAC-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