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GrainGenes Locus Report: POPA2_1040

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Locus
POPA2_1040  [ Marker Report ]
Type
SNP
Synonym
Other name11_21040
BOPA1_11_21040
BOPA1_6035-654
Synonym11_21040
Chromosome
5H
Chromosome Arm
5HS
Map
Hordeum-OPA-2009-5H51
Hordeum-OPA123-2008-5H51
Hordeum-OPAConsensus-2011-5H42.41
Hordeum-OWB-OPA2008-5H58.35
[ Show Nearby Loci ]
Map Data
Barley, OPA 2009, Consensus
Barley, OPA 2011, Consensus
Barley, OPA123-2008, Consensus
Barley, OWB, OPA2008
Species
Hordeum vulgare
Sequence
HVVMRXALLhA0427J19
Probe
HAR35_3370
i_11_21040
Reference
ReferenceComadran J et al. (2012) Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and environmental adaptation in cultivated barley Nature Genetics 44:1388-1392.
ReferenceClose TJ et al. (2009) Development and implementation of high-throughput SNP genotyping in barley. BMC Genomics 10:582.
ReferenceSzucs P et al. (2009) An Integrated Resource for Barley Linkage Map and Malting Quality QTL Alignment The Plant Genome 2:134-140.
Data Source
Close, Timothy J.
Remark
[ Hide all but 1 of 12 ]
Marker name in barley Pilot OPA1 = 2_1040
Marker name in barley OPA1 = 11_21040
Original SNP name = 6035-654
Most representative HarvEST:Barley Assembly #32 Unigene = 6035
Most representative HarvEST:Barley Assembly #35 Unigene = 3370
HarvEST Unigene 35 Probe Set = Contig8020_at; HW07H20u_s_at
Unigene 35 Rice Locus = LOC_Os12g10560
Description for best rice BLAST hit to Unigene 35 member = AP-2 complex subunit sigma-1, putative, expressed; E value = 2E-76
Marker name in barley Pilot OPA2 = 2_1040
HarvEST Unigene 35 Probe Set = Contig8020_at, HW07H20u_s_at
Description for best rice BLAST hit to Unigene 35 member = protein AP-2 complex subunit sigma-1, putative, expressed; E value = 2E-76
BLAST hit in the rice genome = AP-2 complex subunit sigma-1, putative, expressed