Genotyping and primer details


Genotyping and primer details for 758F05 - At5g03850
Line ID 758F05
Locus At5g03850 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr5:1028585 of line 758F05 Chr5:1028585
   
Insertion allele amplicon 8474 - 25mg
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 25mg: 5'-TTATTGAAAACCGAGTACCGAAAT-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:1029185
   
Insertion allele amplicon 8474 - CF52
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer CF52: 5'-TTGAAGTTAGCCCCTGTTTTCTTA-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:1028951
   
Insertion allele amplicon 8474 - CF53
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer CF53: 5'-CCAGGGTAGAAGAAAGTGATTCTG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:1028005
   
wt amplicon (over InsPos) CF53 - CF52
wt amplicon start Chr5:1028005
wt amplicon end Chr5:1028951
wt amplicon size 947 bp
Locus specific primer CF52: 5'-TTGAAGTTAGCCCCTGTTTTCTTA-3'
2nd locus specific primer CF53: 5'-CCAGGGTAGAAGAAAGTGATTCTG-3'
   
wt amplicon (over InsPos) 26mg - 25mg
wt amplicon start Chr5:1028071
wt amplicon end Chr5:1029185
wt amplicon size 1115 bp
Locus specific primer 25mg: 5'-TTATTGAAAACCGAGTACCGAAAT-3'
2nd locus specific primer 26mg: 5'-AAGCAGAGATTTCAAACATTAGGG-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