Genotyping and primer details


Genotyping and primer details for 781D10 - At5g09420
Line ID 781D10
Locus At5g09420 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr5:2929783 of line 781D10 Chr5:2929783
   
Insertion allele amplicon 8474 - 09mg
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 09mg: 5'-TTGATACCACTGGTGGTGTTAGAG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:2929222
   
Insertion allele amplicon 8474 - 25an
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 25an: 5'-GTGTTTCTTGGATTACGTTTGGTT-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:2929162
   
Insertion allele amplicon 8474 - 27au
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 27au: 5'-TGCTCTTCAGAGCTGTAACAACAT-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:2930144
   
wt amplicon (over InsPos) 27au - 25an
wt amplicon start Chr5:2929162
wt amplicon end Chr5:2930144
wt amplicon size 983 bp
Locus specific primer 25an: 5'-GTGTTTCTTGGATTACGTTTGGTT-3'
2nd locus specific primer 27au: 5'-TGCTCTTCAGAGCTGTAACAACAT-3'
   
wt amplicon (over InsPos) 10mg - 09mg
wt amplicon start Chr5:2929222
wt amplicon end Chr5:2930408
wt amplicon size 1187 bp
Locus specific primer 09mg: 5'-TTGATACCACTGGTGGTGTTAGAG-3'
2nd locus specific primer 10mg: 5'-GGATTACCAGAATTCCATCTTCCT-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