GDsnp00079, GDsnp00079 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00079
dbSNP IDss475882549
SNP Array ID
480K SNP array for apple:AX-115190463
IRSC 9K SNP array for apple:GDsnp00079
20K SNP array for apple:GDsnp00079
TypeSNP
SNP AllelesA/G
Probe 1GDsnp00079.probe: GCAACGCTAGAAGCAAGGGTATTCCGGTAACACAGATTTATGATTTTCTT
5' Flanking SequenceGGTACTCAATTACCGTTTTAGTTTGGCGGATGCTCGTTATCTTAACACGTGCAACGCTAG AAGCAAGGGTATTCCGGTAACACAGATTTATGATTTTCTT
3' Flanking SequenceTGTACTTACAGTTGTTGCTGGGCTCCANAGTGACCATAGCTGTGCAGGATCCATCATTTC CGGTACGTTGCTATGTTACTCAATCTTGTTCCAAACGAAC
SpeciesMalus x domestica
Publication[view all]
ContactMichela Troggio
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
Libraries
Library NameType
20K SNP array for appleSNP_chip
480K SNP array for appleSNP_chip
IRSC 9K SNP array for appleSNP_chip
Analyses
This genetic_marker is derived from or has results from the following analyses
Analysis NameDate Performed
RosBREED SNP development2011-01-01
Publications
YearPublication
2010Velasco R, Zharkikh A, Affourtit J, Dhingra A, Cestaro A, Kalyanaraman A, Fontana P, Bhatnagar SK, Troggio M, Pruss D, Salvi S, Pindo M, Baldi P, Castelletti S, Cavaiuolo M, Coppola G, Costa F, Cova V, Dal Ri A, Goremykin V, Komjanc M, Longhi S, Magnago P, Malacarne G, Malnoy M, Micheletti D, Moretto M, Perazzolli M, Si-Ammour A, Vezzulli S, Zini E, Eldredge G, Fitzgerald LM, Gutin N, Lanchbury J, Macalma T, Mitchell JT, Reid J, Wardell B, Kodira C, Chen Z, Desany B, Niazi F, Palmer M, Koepke T, Jiwan D, Schaeffer S, Krishnan V, Wu C, Chu VT, King ST, Vick J, Tao Q, Mraz A, Stormo A, Stormo K, Bogden R, Ederle D, Stella A, Vecchietti A, Kater MM, Masiero S, Lasserre P, Lespinasse Y, Allan AC, Bus V, Chagné D, Crowhurst RN, Gleave AP, Lavezzo E, Fawcett JA, Proost S, Rouzé P, Sterck L, Toppo S, Lazzari B, Hellens RP, Durel CE, Gutin A, Bumgarner RE, Gardiner SE, Skolnick M, Egholm M, Van de Peer Y, Salamini F, Viola R. The genome of the domesticated apple (Malus x domestica Borkh.). Nature Genetics. 2010 Oct; 42(10):833-839.
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.
2011Micheletti D, Troggio M, Zharkikh A, Costa F, Malnoy M, Velasco R, Salvi S. Genetic diversity of the genus Malus and implications for linkage mapping with SNPs. Tree Genetics & Genomes. 2011; 7(4):857-868.
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.
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map15N/A107.4GDsnp00079View
2Apple-FjxPL-F1-2013LG15N/A83.45GDsnp00079View
3Apple-RosBREED-3.9K-201915N/A99.76GDsnp00079View
4Apple-MM-F115N/A113.3a475882549View
5Apple-GB-F1LG_15N/A81.3GD_SNP00079View
6Apple-GDxBr-F1-2013LG15N/A81.35GD_SNP00079View
7Apple-Honeycrisp_Consensus-F115N/A99.76GDsnp00079View
Sequence
>GDsnp00079 ID=GDsnp00079; Name=GDsnp00079; organism=Malus x domestica; type=genetic_marker; length=67bp
AGGGTATTCCGGTAACACAGATTTATGATTTTCTT[A/G]TGTACTTACA
GTTGTTGCTGGGCTCCA