GDsnp00015, GDsnp00015 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00015
dbSNP IDss475882308
SNP Array ID
480K SNP array for apple:AX-105203921
IRSC 9K SNP array for apple:GDsnp00015
20K SNP array for apple:GDsnp00015
50K SNP array for apple:AX-105203921
TypeSNP
SNP AllelesT/C
Probe 1GDsnp00015.probe: CATGTTATTATTTTTATTTTTTTTAATTACGAAGCAATTATTTTTGCATA
5' Flanking SequenceTATCATCATAAAATTAGGGAGCATTTTATTGATTAGTAAATACTAAATATCATGTTATTA TTTTTATTTTTTTTAATTACGAAGCAATTATTTTTGCATA
3' Flanking SequenceTCTCTCCTATTATTTGTAAGTGTTAATTTATGTGCTAGTTAATNTATAGTAAATGAATTA TTTATAAATTAGCTGTTNTTTCTTCTTCCTCTTCTTCCTC
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
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.
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.
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 Integrated map10N/A34.9GDsnp00015View
2Apple_HCGA_F110N/A42.27GDsnp00015View
3Apple_HC64_F110N/A49.28GDsnp00015View
4Apple_HCMO_F110N/A32.08GDsnp00015View
5Apple_HGMM_Consenus10N/A38.57GDsnp00015View
6Apple-RosBREED-3.9K-201910N/A35.58GDsnp00015View
7Apple-consensus-Allard-2016LG10N/A29.02GDsnp00015View
8Apple-GB-F1LG_10N/A33.9GD_SNP00015View
9Apple-GDxBr-F1-2013LG10N/A33.91GD_SNP00015View
10Apple-Honeycrisp_Consensus-F110N/A35.58GDsnp00015View
Sequence
>GDsnp00015 ID=GDsnp00015; Name=GDsnp00015; organism=Malus x domestica; type=genetic_marker; length=75bp
ATTTTTTTTAATTACGAAGCAATTATTTTTGCATA[C/T]TCTCTCCTAT
TATTTGTAAGTGTTAATTTATGTGC