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GrainGenes Marker Report: POPA2_0545

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Locus
POPA2_0545
Type
SNP
Synonym
Other name11_20545
BOPA1_11_20545
BOPA1_3390-205
Synonym11_20545
Chromosome
5H
Chromosome Arm
5HL
Map
Hordeum-OPA-2009-5H159.79
Hordeum-OPA123-2008-5H159.79
Hordeum-OPAConsensus-2011-5H154.51
[ Show Nearby Loci ]
Map Data
Barley, OPA 2009, Consensus
Barley, OPA 2011, Consensus
Barley, OPA123-2008, Consensus
Species
Hordeum vulgare
Probe
HAR35_16365
i_11_20545
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.
Data Source
Close, Timothy J.
Remark
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Marker name in barley Pilot OPA1 = 2_0545
Marker name in barley OPA1 = 11_20545
Original SNP name = 3390-205
Most representative HarvEST:Barley Assembly #32 Unigene = 3390
Most representative HarvEST:Barley Assembly #35 Unigene = 16365
HarvEST Unigene 35 Probe Set = Contig4782_at; Contig4782_s_at
Unigene 35 Rice Locus = LOC_Os03g59090
Description for best rice BLAST hit to Unigene 35 member = pheophorbide a oxygenase, chloroplast precursor, putative, expressed; E value = 4E-88
Marker name in barley Pilot OPA2 = 2_0545
HarvEST Unigene 35 Probe Set = Contig4782_at, Contig4782_s_at
Description for best rice BLAST hit to Unigene 35 member = protein pheophorbide a oxygenase, chloroplast precursor, putative, expressed; E value = 4E-88
BLAST hit in the rice genome = pheophorbide a oxygenase, chloroplast precursor, putative, expressed


Probe for Locus
HAR35_16365
Locus
POPA2_0545
General Remarks
Probe name is structured 'HAR35_xxxxx' where HAR35 denotes the 35th assembly in the HarvEST project and xxxx is the Unigene number
Type
cDNA
Source Species
Hordeum vulgare