Genotyping and primer details


Genotyping and primer details for 687F10 - At3g04420
Line ID 687F10
Locus At3g04420 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr3:1172996 of line 687F10 Chr3:1172996
   
Insertion allele amplicon 3144 - 15ah
T-DNA primer 3144: 5'-GTGGATTGATGTGATATCTCC-3'
Locus specific primer 15ah: 5'-CGTATTAAAACCATCCCAAAGAAA-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr3:1172584
   
Insertion allele amplicon 8474 - CQ84
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer CQ84: 5'-CGTTCACAAGAAGAGGGATTAAAG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr3:1173546
   
wt amplicon (over InsPos) CQ84 - 15ah
wt amplicon start Chr3:1172584
wt amplicon end Chr3:1173546
wt amplicon size 963 bp
Locus specific primer 15ah: 5'-CGTATTAAAACCATCCCAAAGAAA-3'
2nd locus specific primer CQ84: 5'-CGTTCACAAGAAGAGGGATTAAAG-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