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GrainGenes Marker Report: EBmatc0040

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Locus	EBmatc0040
Type	Microsatellite
Chromosome	5H
Map	Barley-ConsensusFHB-5H 61.29 Hordeum-Consensus2007-SSR-5H 53.12 Hordeum-LxHs-5H 41
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Map Data	Barley, Consensus 2007, SSR Barley, Consensus 2023, FHB Barley, LxHs
Species	Hordeum spontaneum Hordeum vulgare
Probe	EBmatc0040 EBmatc40
Reference	Varshney RK et al. (2007) A high density barley microsatellite consensus map with 775 SSR loci. Theoretical and Applied Genetics 114:1091. Ramsay L et al. (2000) A simple sequence repeat-based linkage map of barley Genetics 156:1997-2005.
Remark	Locus in 'Barley, Consensus 2007, SSR' mapped in population(s) : Lina x H. spontaneum Insert contains repeat (ATC)6N3(ATC)3 Polymorphic Information Content (PIC) = 0.47 Developing laboratory = SCRI (R. Waugh)
Probe for Locus	EBmatc40
Locus	EBmatc0040
Reference	Ramsay L et al. (2000) A simple sequence repeat-based linkage map of barley Genetics 156:1997-2005.
General Remarks	Insert contains repeat (ATC)6N3(ATC)3 Quality = 2: Single product, relatively strong stutter bands Diversity Index (DI) = 0.47
Type	PCR SSR
PCR primers	5' AAAGTTGACCACCACTGTTGA 3' 5' ATGATGATGGTCTTTCTTCTGG 3'
SSR size	179
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