GDsnp01764, GDsnp01764 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp01764
dbSNP IDss475882897
SNP Array ID
480K SNP array for apple:AX-115198365
IRSC 9K SNP array for apple:GDsnp01764
20K SNP array for apple:GDsnp01764
50K SNP array for apple:AX-105188442
TypeSNP
SNP AllelesA/G
Probe 1GDsnp01764.probe: CTTTCTCCATGTGCGGTCTCCCTCCTGATCTGACAACCCTATGAAGGCCC
5' Flanking SequenceGTGGAGTTGGAAGCTCATCAAACAGAGCCCTCACATTGTTGCAACAGACACTTTCTCCAT GTGCGGTCTCCCTCCTGATCTGACAACCCTATGAAGGCCC
3' Flanking SequenceAAGAATTCGGGACAAGTGAGATTAGATGGCTTNTTTATCACCGCTATTAAGAATTTGACT AAGAAAAAACTAAAGAAAATATAAAAAAATATCAACCAAA
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.
2012Chagné D, Crowhurst RN, Troggio M, Davey MW, Gilmore B, Lawley C, Vanderzande S, Hellens RP, Kumar S, Cestaro A, Velasco R, Main D, Rees JD, Iezzoni A, Mockler T, Wilhelm L, Van de Weg E, Gardiner SE, Bassil N, Peace C. Genome-wide SNP detection, validation, and development of an 8K SNP array for apple. PloS one. 2012; 7(2):e31745.
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.
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 map8N/A15.8GDsnp01764View
2Pear-PM-F1-Moonglow8N/A22.84GDsnp01764View
3Apple-RGxPI6-F1LG8N/A10.5GDsnp01764View
4Apple-FjxPL-F1-2013LG8N/A13.63GDsnp01764View
5Apple-RosBREED-3.9K-20198N/A49.25GDsnp01764View
6Apple-BB-F18N/A53.86GDsnp01764View
7Apple-NC-F18N/A69.38GDsnp01764View
8Apple-NCZFBB-consensus8N/A53.75GDsnp01764View
9Apple-ZF-F18N/A57.36GDsnp01764View
10Apple-consensus-Allard-2016LG8N/A53.03GDsnp01764View
11Apple-MM-F18N/A52.8c475882897View
12Apple-Honeycrisp_Consensus-F18N/A49.25GDsnp01764View
13Pear-PH-CG-2017LG8N/A117.06GDsnp01764View
14Apple-GDxBr-F1-2013LG8N/A7.99GD_SNP01764View
Sequence
>GDsnp01764 ID=GDsnp01764; Name=GDsnp01764; organism=Malus x domestica; type=genetic_marker; length=72bp
GTCTCCCTCCTGATCTGACAACCCTATGAAGGCCC[A/G]AAGAATTCGG
GACAAGTGAGATTAGATGGCTT