Genotyping and primer details


Genotyping and primer details for 500C07 - At4g24020
Line ID 500C07
Locus At4g24020 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr4:12480446 of line 500C07 Chr4:12480446
   
Insertion allele amplicon 8474 - 04uo
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 04uo: 5'-GAGTATCCTCTCTTCCTCCCTTGT-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:12480210
   
Insertion allele amplicon 8474 - 39vo
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 39vo: 5'-TCCCTTACTTATCCTCATCGAATC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:12480025
   
Insertion allele amplicon CR3S - 59vo
T-DNA primer CR3S: 5'-TTGAGCATATAAGAAACCCTTAGT-3'
Locus specific primer 59vo: 5'-TAAGAACAAAAGGTTGACCCAAAG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:12480933
   
Insertion allele amplicon CR3S - 98vo
T-DNA primer CR3S: 5'-TTGAGCATATAAGAAACCCTTAGT-3'
Locus specific primer 98vo: 5'-TACTGAACATTTGGAGTCCATTCA-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:12481078
   
Insertion allele amplicon CR3S - CN09
T-DNA primer CR3S: 5'-TTGAGCATATAAGAAACCCTTAGT-3'
Locus specific primer CN09: 5'-GATGGAGAAGAGTCTGCAATTACC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:12480700
   
wt amplicon (over InsPos) 04uo - CN09
wt amplicon start Chr4:12480210
wt amplicon end Chr4:12480700
wt amplicon size 491 bp
Locus specific primer CN09: 5'-GATGGAGAAGAGTCTGCAATTACC-3'
2nd locus specific primer 04uo: 5'-GAGTATCCTCTCTTCCTCCCTTGT-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