Genotyping and primer details


Genotyping and primer details for 334G04 - At4g25840
Line ID 334G04
Locus At4g25840 [Araport] [TAIR] [MIPS] [SIGnAL]
Deduced position of insertion Graphic view of Chr4:13138736 of line 334G04 Chr4:13138736
   
Insertion allele amplicon 8474 - 19ci
T-DNA primer 8474: 5'-ATAATAACGCTGCGGACATCTACATTTT-3'
Locus specific primer 19ci: 5'-GAATCTTATTGGAAGATCGGAATG-3'
Sequences from confirmation amplicon show confirmation sequences
Genomic end of ins. amplicon Chr4:13139089
   
wt amplicon (over InsPos) 19ci - 04cg
wt amplicon start Chr4:13138149
wt amplicon end Chr4:13139089
wt amplicon size 941 bp
Locus specific primer 04cg: 5'-ACTTTCTAGACTCACCCGTTTGAA-3'
2nd locus specific primer 19ci: 5'-GAATCTTATTGGAAGATCGGAATG-3'
   
wt amplicon (over InsPos) 63vo - 19ci
wt amplicon start Chr4:13138506
wt amplicon end Chr4:13139089
wt amplicon size 584 bp
Locus specific primer 19ci: 5'-GAATCTTATTGGAAGATCGGAATG-3'
2nd locus specific primer 63vo: 5'-ATGGATTCGGTGAGAAATTAAAGA-3'
   
wt amplicon (over InsPos) 50yc - 19ci
wt amplicon start Chr4:13137484
wt amplicon end Chr4:13139089
wt amplicon size 1606 bp
Locus specific primer 19ci: 5'-GAATCTTATTGGAAGATCGGAATG-3'
2nd locus specific primer 50yc: 5'-GAGAAATGAGAAGAATGGGAAATC-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