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GrainGenes Marker Report: HVM40

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Locus
HVM40
Type
Microsatellite
Synonym
Correct nameHVM040
SynonymHVM40
Chromosome
4 (4H)
4H
Chromosome Arm
4HS
Map
Barley-consensus-2003-4H6
[ Show all 25 ]
[ Show Nearby Loci ]
QTL with Locus Marker
QAa.HaMo-4H
[ Show all 15 ]
Map Data
Barley consensus 2003
[ Show all 25 ]
Species
Hordeum vulgare
Hordeum vulgare subsp. spontaneum
Probe
HVM40
ReferenceLiu Z-W et al. (1996) Development of simple sequence repeat DNA markers and their integration into a barley linkage map. Theoretical and Applied Genetics 93:869-876.
Reference
ReferenceSzucs P et al. (2009) An Integrated Resource for Barley Linkage Map and Malting Quality QTL Alignment The Plant Genome 2:134-140.
[ Show all 7 ]
Data Source
Langridge, Peter J.
Remark
Number of populations contributing to the placement of HVM40 in the Barley, Consensus 2006 DArT maps = 5
[ Show all 8 ]



Probe
HVM40
Locus
HVM40
[ Show all 6 ]
Reference
ReferenceHearnden PR et al. (2007) A genetic map of 1,000 SSR and DArT markers in a wide barley cross. Theoretical and Applied Genetics 115:383-391.
ReferenceVarshney RK et al. (2007) A high density barley microsatellite consensus map with 775 SSR loci. Theoretical and Applied Genetics 114:1091.
ReferenceLiu Z-W et al. (1996) Development of simple sequence repeat DNA markers and their integration into a barley linkage map. Theoretical and Applied Genetics 93:869-876.
Remarks
Insert contains repeats (GA)6, (GT)4, and (GA)7.
Type
PCR
SSR
PCR primers
5' CGATTCCCCTTTTCCCAC 3'
5' ATTCTCCGCCGTCCACTC 3'
CGATTCCCCTTTTCCCAC
ATTCTCCGCCGTCCACTC
SSR size
0.160
Amplification Conditions
The 'touchdown' PCR comprised 48 cycles of 94oC for 1 min denaturing and 72oC for 1 min extension. Annealing (30 s) temperatures were progressively decreased by 1oC every second cycle from 64oC to 55oC. Annealing conditions of 1 min at 55oC were maintained during the final 30 cycles. The reaction ended with a 5-min extension at 72oC.
Insert Enzyme
TaqI
Source Species
Hordeum vulgare
Source Germplasm
Old ZZ (barley)
DNA Origin
Size-fractionated genomic library screened with synthetic dinucleotide repeats (CA)10 and (GA)10.
Clone Vector
pGEM-7zf(+)
Vector Enzyme
ClaI
Data Source
Saghai Maroof, M.A.97.01.02



Locus for Probe
HVM0040
Type
Microsatellite
Map
Barley, B73xCPI-4H18.7
[ Show Nearby Loci ]
Map Data
Barley, B73xCPI
Probe
HVM40



Locus for Probe
HVM040
Type
Microsatellite
Synonym
Other nameHVM40
Map
Hordeum-Bins-4H15.8
[ Show Nearby Loci ]
Map Data
Barley, BinMap 2005
Probe
HVM40



Locus for Probe
XHVM40a
Type
Microsatellite
Chromosome
5R
Chromosome Arm
5RS
Map
Secale-UxE-519.7
[ Show Nearby Loci ]
Map Data
Rye, UC90 x E-line
Probe
HVM40



Locus for Probe
XHVM40e
Type
Microsatellite
Chromosome
5R
Chromosome Arm
5RL
Map
Secale-UxE-582.4
[ Show Nearby Loci ]
Map Data
Rye, UC90 x E-line
Probe
HVM40



Locus for Probe
XHVM40g
Type
Microsatellite
Chromosome
5R
Chromosome Arm
5RS
Map
Secale-UxE-549.9
[ Show Nearby Loci ]
Map Data
Rye, UC90 x E-line
Probe
HVM40