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GrainGenes Marker Report: POPA3_0296

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Locus
POPA3_0296
Type
SNP
Synonym
Other name12_30296
BOPA2_12_30296
Synonym12_30296
Chromosome
7H
Chromosome Arm
7HS
Map
Hordeum-OPA-2009-7H0
Hordeum-OPA123-2008-7H0
Hordeum-OPAConsensus-2011-7H0
[ Show Nearby Loci ]
Map Data
Barley, OPA 2009, Consensus
Barley, OPA 2011, Consensus
Barley, OPA123-2008, Consensus
Species
Hordeum vulgare
Probe
HAR35_9494
i_12_30296
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
[ Hide all but 1 of 13 ]
Marker name in barley Pilot OPA1 = 3_0296
Marker name in barley OPA1 = 12_30296
Original SNP name = AF509744_MX_948
Most representative HarvEST:Barley Assembly #32 Unigene = 17296
Most representative HarvEST:Barley Assembly #35 Unigene = 9494
HarvEST Unigene 35 Probe Set = Contig19417_at
Unigene 35 Rice Locus = LOC_Os08g10540
Description for best rice BLAST hit to Unigene 35 member = retrotransposon protein, putative, LINE subclass; E value = 3E-80
Marker name in barley Pilot OPA3 = 3_0296
Marker name in barley OPA2 = 12_30296
Original SNP name = SCRI_bbc09137_03_152
Description for best rice BLAST hit to Unigene 35 member = protein retrotransposon protein, putative, LINE subclass; E value = 3E-80
BLAST hit in the rice genome = retrotransposon protein, putative, LINE subclass


Probe for Locus
HAR35_9494
Locus
POPA3_0296
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