Genotyping and primer details


Genotyping and primer details for 596C03 - At5g42280
Line ID 596C03
Locus At5g42280 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr5:16906855 of line 596C03 Chr5:16906855
   
Insertion allele amplicon 8474 - 01am
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 01am: 5'-ATGATGCCTCTAAAAATGAATTGG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:16907097
   
Insertion allele amplicon 8474 - 20ak
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 20ak: 5'-TCATCGAGAACAAAATCACACTTC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:16906266
   
Insertion allele amplicon 8474 - 67wn
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 67wn: 5'-CTAACTCTCATTTCCGTAGATCCG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:16907638
   
wt amplicon (over InsPos) 01am - 20ak
wt amplicon start Chr5:16906266
wt amplicon end Chr5:16907097
wt amplicon size 832 bp
Locus specific primer 20ak: 5'-TCATCGAGAACAAAATCACACTTC-3'
2nd locus specific primer 01am: 5'-ATGATGCCTCTAAAAATGAATTGG-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