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GrainGenes Marker Report: Bmac0399

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Locus	Bmac0399
Type	Microsatellite
Synonym	Synonym Bmac399
Chromosome	1H 5 (1H)
Map	Barley-ConsensusFHB-1H 28.3 [ Show all 17 ]
	[ Show Nearby Loci ]
Map Data	Barley, Abiotic QTL Consensus [ Show all 17 ]
Species	Hordeum spontaneum Hordeum vulgare
Probe	Bmac0399 Bmac399
Reference	Szucs P et al. (2009) An Integrated Resource for Barley Linkage Map and Malting Quality QTL Alignment The Plant Genome 2:134-140. Varshney RK et al. (2007) A high density barley microsatellite consensus map with 775 SSR loci. Theoretical and Applied Genetics 114:1091. Rostoks N et al. (2005) Genome-wide SNP discovery and linkage analysis in barley based on genes responsive to abiotic stress. Molecular Genetics and Genomics 274:515-527. Ramsay L et al. (2000) A simple sequence repeat-based linkage map of barley Genetics 156:1997-2005.
Remark	[ Hide all but 1 of 7 ] Bin on the 'Barley, Integrated, Marcel 2009' Map Set : 'chromosome_kleinhofs & graner BIN nb.subBIN nb' Mapping population(s) used for locus placement on the 'Barley, Integrated, Marcel 2009' Map Set = L9Oregon Wolfe Barleys x Vada,Steptoe x Morex,Oregon Wolfe Barleys,Nure x Tremois Loci in 'Barley, Consensus 2006, Marcel' mapped in population(s) : L94 x Vada; Oregon Wolfe Dom x Rec; Steptoe x Morex Locus in 'Barley, Consensus 2007, SSR' mapped in population(s) : L94 x Vada, Steptoe x Morex, OWBrecessive x OWBdominant, Lina x H. spontaneum Insert contains repeat (AC)21 Polymorphic Information Content (PIC) = 0.72 Developing laboratory = SCRI (R. Waugh)
Possible Orthologs	Bmac399
Probe for Locus	Bmac399
Locus	Bmac0399 Bmac399-1H Bmac399
Synonym	Other name Bmac0399
Reference	Ramsay L et al. (2000) A simple sequence repeat-based linkage map of barley Genetics 156:1997-2005.
General Remarks	Insert contains repeat (AC)21 Quality = 2: Single product, relatively strong stutter bands Diversity Index (DI) = 0.72
Type	PCR SSR
PCR primers	5' CGATGCTTTACTATGAGAGGT 3' 5' GGGTCTGAAGCCTGAAC 3'
SSR size	145
Amplification Conditions	1 cycle of 3 mins @ 94C, 1 min @ 66C, 1 min @ 72C, 5 cycles of 30 secs @ 94C, 30 secs @ 65C (decreasing 1C per cycle), 30 secs @ 72C, 24 cycles of 30 secs @ 94C, 30 secs @ 60C, 30 secs @ 72C, 1 cycle of 5 mins @ 72C.
Source Species	Hordeum vulgare