RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1, RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1 (genetic_marker) Malus x domestica

Marker Overview
NameRosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1
dbSNP IDss475880342
SNP Array ID
480K SNP array for apple:AX-105199661
IRSC 9K SNP array for apple:RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1
20K SNP array for apple:RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1
50K SNP array for apple:AX-105199661
TypeSNP
SNP AllelesA/G
Probe 1RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1.probe: CCATATTTTTCTTCGGATTTGACATTTCCCAACTCAAATCTCGCGCATGA
5' Flanking SequenceGAGCATTTTCACCATATTTTTCTTCGGATTTGACATTTCCCAACTCAAATCTCGCGCATG A
3' Flanking SequenceGTTTACCACACTTCCACTGCTCAAGGAGACGCATTCCTTCCAAGCTATTCCAACCCAAAT G
SpeciesMalus x domestica
Publication[view all]
ContactMichela Troggio
Nicola Harrison
Contact
NameDetails
Michela Troggio
First name:Michela
Last name:Troggio
Title:Researcher
Institution:Research and Innovation Centre, Fondazione Edmund Mach
Address:Via Edmund Mach, 1, 38010 San Michele All'adige TN, Italy
Country:Italy
Email:ti.hcamf@oiggort.alehcim
Phone:+39 0461 615111
Fax:+39 0461 650218
Nicola Harrison
First name:Nicola
Last name:Harrison
Address:East Malling Research, New Road, East Malling, Kent ME19 6BJ, UK
Email:nicola.harrison@emr.ac.uk
Analyses
This genetic_marker is derived from or has results from the following analyses
Analysis NameDate Performed
RosBREED SNP development2011-01-01
Publications
YearPublication
2014Bianco L, Cestaro A, Sargent DJ, Banchi E, Derdak S, Di Guardo M, Salvi S, Jansen J, Viola R, Gut I, Laurens F, Chagné D, Velasco R, van de Weg E, Troggio M. Development and Validation of a 20K Single Nucleotide Polymorphism (SNP) Whole Genome Genotyping Array for Apple (Malus × domestica Borkh). PloS one. 2014; 9(10):e110377.
2012Antanaviciute L, Fernández-Fernández F, Jansen J, Banchi E, Evans KM, Viola R, Velasco R, Dunwell JM, Troggio M, Sargent DJ. Development of a dense SNP-based linkage map of an apple rootstock progeny using the Malus Infinium whole genome genotyping array. BMC genomics. 2012; 13:203.
2016Harrison N, Harrison RJ, Barber-Perez N, Cascant-Lopez E, Cobo-Medina M, Lipska M, Conde-Ruíz R, Brain P, Gregory PJ, Fernández-Fernández F. A new three-locus model for rootstock-induced dwarfing in apple revealed by genetic mapping of root bark percentage. Journal of experimental botany. 2016 Jan 29; 67(6):1871-1881.
2016Bianco L, Cestaro A, Linsmith G, Muranty H, Denance C, Théron A, Poncet C, Micheletti D, Kerschbamer E, Di Pierro EA, Larger S, Pindo M, van de Weg E, Davassi A, Laurens F, Velasco R, Durel CE, Troggio M. Development and validation of the Axiom(®) Apple480K SNP genotyping array. The Plant journal : for cell and molecular biology. 2016 Feb 26.
2020Rymenants M, van de Weg E, Auwerkerken A, De Wit I, Czech A, Nijland B, Heuven H, De Storme N, and Keulemans W. Detection of QTL for apple fruit acidity and sweetness using sensorial evaluation in multiple pedigreed full-sib families. Tree Genetics & Genomes 16, 71 (2020). https://doi.org/10.1007/s11295-020-01466-8
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple-MM-F111N/A84.4a475880342View
2Apple-M27xM116-2016LG11N/A82RBbinSNP0618View
Sequence
>RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1 ID=RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1; Name=RosBREEDSNP_SNP_AG_40025534_Lg11_00182_MAF10_55558_exon1; organism=Malus x domestica; type=genetic_marker; length=75bp
GATTTGACATTTCCCAACTCAAATCTCGCGCATGA[A/G]GTTTACCACA
CTTCCACTGCTCAAGGAGACGCATT
Alignments
Feature NameTypeLocationAnalysis
MDC007544.488 contig MDC007544.488:24373..24373. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr11 chromosome Chr11:42997189..42997189+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr00 chromosome Chr00:50352079..50352079- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation