Genotyping and primer details


Genotyping and primer details for 424A06 - At4g05180
Line ID 424A06
Locus At4g05180 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr4:2673193 of line 424A06 Chr4:2673193
   
Insertion allele amplicon 8474 - 19us
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 19us: 5'-CTATGTGGCAAAACTGAGAATCAA-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:2673349
   
Insertion allele amplicon 8474 - 52vd
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 52vd: 5'-CAAGAAACCGCTAGAAAACAAAAC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:2672294
   
Insertion allele amplicon 8474 - 59vn
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 59vn: 5'-TTCTTTTTGGAATGAAATATGCTC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:2673803
   
Insertion allele amplicon 8474 - 73vm
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 73vm: 5'-CCAAACTTAGGAAGAATCTTGTGC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:2672235
   
wt amplicon (over InsPos) 52vd - 19us
wt amplicon start Chr4:2672294
wt amplicon end Chr4:2673349
wt amplicon size 1056 bp
Locus specific primer 19us: 5'-CTATGTGGCAAAACTGAGAATCAA-3'
2nd locus specific primer 52vd: 5'-CAAGAAACCGCTAGAAAACAAAAC-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