GDsnp02638, GDsnp02638 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp02638
dbSNP IDss475882469
SNP Array ID
480K SNP array for apple:AX-115181820
IRSC 9K SNP array for apple:GDsnp02638
20K SNP array for apple:GDsnp02638
50K SNP array for apple:AX-105178336
TypeSNP
SNP AllelesA/G
Probe 1GDsnp02638.probe: TAGAACATGTTTATACTGTTTGGAAGCCAAATGGTGACCAGAGGTGGCTG
5' Flanking SequenceGCTCGATAACGACCTGATTCATTATTGTGTCGACTTGAACACCTGTTAATTTTGTGTTGT GTCGTGTCAGGAATTGTCAGGCCTATTTTCAAGCTATTTT
3' Flanking SequenceCAGCCACCTCTGGTCACCATTTGGCTTCCAAACAGTATAAACATGTTCTACTATTCTCTA GCTTCGTTTTAGTATATTATTGGTCGAATTTGATTGAGAA
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.
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_HCGA_F114N/A38.2GDsnp02638View
2Apple_HC64_F114N/A23.79GDsnp02638View
3Apple_HCMO_F114N/A37.87GDsnp02638View
4Apple_HGMM_Consenus14N/A36.56GDsnp02638View
5Apple Integrated map14N/A23.6GDsnp02638View
6Pear-PM-F1-Moonglow2N/A59.77GDsnp02638View
7Apple-RosBREED-3.9K-201914N/A28.53GDsnp02638View
8Apple-Honeycrisp_Consensus-F114N/A28.53GDsnp02638View
9Pear-PH-CG-2017LG2N/A99.52GDsnp02638View
10Apple-GDxBr-F1-2013LG14N/A23.34GD_SNP02638View
Sequence
>GDsnp02638 ID=GDsnp02638; Name=GDsnp02638; organism=Malus x domestica; type=genetic_marker; length=75bp
GTCAGGAATTGTCAGGCCTATTTTCAAGCTATTTT[C/T]CAGCCACCTC
TGGTCACCATTTGGCTTCCAAACAG