Genotyping and primer details


Genotyping and primer details for 398H12 - At5g11480
Line ID 398H12
Locus At5g11480 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr5:3671161 of line 398H12 Chr5:3671161
   
Insertion allele amplicon 8474 - 49wp
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 49wp: 5'-GAGAGAGATTTTGGTTCACTGGTC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:3671837
   
Insertion allele amplicon 8474 - CD82
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer CD82: 5'-CAACAATACCCCATCTTCAAAAGT-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:3670405
   
Insertion allele amplicon 8474 - CD83
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer CD83: 5'-CTTCGCATTTCAGTTTCTTAAACC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:3671404
   
wt amplicon (over InsPos) CD83 - CD82
wt amplicon start Chr5:3670405
wt amplicon end Chr5:3671404
wt amplicon size 1000 bp
Locus specific primer CD82: 5'-CAACAATACCCCATCTTCAAAAGT-3'
2nd locus specific primer CD83: 5'-CTTCGCATTTCAGTTTCTTAAACC-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 06.12.2018 16:11