Genotyping and primer details


Genotyping and primer details for 619F02 - At5g41770
Line ID 619F02
Locus At5g41770 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr5:16720776 of line 619F02 Chr5:16720776
   
Insertion allele amplicon 8474 - 07bc
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 07bc: 5'-ACGTGCCAGAGGTAACTTTAAAAC-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:16720420
   
Insertion allele amplicon 8474 - 17mg
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 17mg: 5'-ACTAAGCATTACAAGGTGTGGGTT-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:16720292
   
Insertion allele amplicon 8474 - 44bc
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 44bc: 5'-CGTACTAAGCATTACAAGGTGTGG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:16720289
   
Insertion allele amplicon 8474 - CF85
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer CF85: 5'-CACAAACCGAGAGATCAGAACATA-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr5:16721168
   
wt amplicon (over InsPos) CF85 - 44bc
wt amplicon start Chr5:16720289
wt amplicon end Chr5:16721168
wt amplicon size 880 bp
Locus specific primer 44bc: 5'-CGTACTAAGCATTACAAGGTGTGG-3'
2nd locus specific primer CF85: 5'-CACAAACCGAGAGATCAGAACATA-3'
   
wt amplicon (over InsPos) 18mg - 17mg
wt amplicon start Chr5:16720292
wt amplicon end Chr5:16721287
wt amplicon size 996 bp
Locus specific primer 17mg: 5'-ACTAAGCATTACAAGGTGTGGGTT-3'
2nd locus specific primer 18mg: 5'-GCCAGCGATTATAAATAAGTTCCA-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