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GrainGenes Marker Report: POPA1_0857

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Locus
POPA1_0857
Type
SNP
Synonym
Other name12_10857
BOPA2_12_10857
Synonym12_10857
Chromosome
5H
Chromosome Arm
5HL
Map
Hordeum-OPA-2009-5H194.84
Hordeum-OPA123-2008-5H194.84
Hordeum-OPAConsensus-2011-5H188.7
[ Show Nearby Loci ]
Map Data
Barley, OPA 2009, Consensus
Barley, OPA 2011, Consensus
Barley, OPA123-2008, Consensus
Species
Hordeum vulgare
Probe
HAR35_4133
i_12_10857
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 = 1_0857
Marker name in barley OPA1 = 12_10857
Original SNP name = 6580-293
Most representative HarvEST:Barley Assembly #32 Unigene = 6580
Most representative HarvEST:Barley Assembly #35 Unigene = 4133
HarvEST Unigene 35 Probe Set = Contig9041_s_at; Contig9042_s_at; Contig9042_x_at
Unigene 35 Rice Locus = LOC_Os08g14450
Marker name in barley OPA2 = 12_10857
HarvEST Unigene 35 Probe Set = Contig9041_s_at, Contig9042_s_at, Contig9042_x_at
Description for best rice BLAST hit to Unigene 35 member = protein RNA polymerase sigma factor rpoD1, putative, expressed; E value = 3E-82
BLAST hit in the rice genome = RNA polymerase sigma factor rpoD1, putative, expressed


Probe for Locus
HAR35_4133
Locus
POPA1_0857
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