GDsnp00002, GDsnp00002 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00002
dbSNP IDss475882653
SNP Array ID
480K SNP array for apple:AX-105196456
IRSC 9K SNP array for apple:GDsnp00002
20K SNP array for apple:GDsnp00002
50K SNP array for apple:AX-105196456
TypeSNP
SNP AllelesT/G
Probe 1GDsnp00002.probe: CCTATGGAGTCGATCTTGGTTGCATGTAAAATTTGCTTCGTGGTGTCAGA
5' Flanking SequenceTGAGTAAATTCAAACAACCAACACATTGATAGAATTGCATGTGAATTTCTCCTATGGAGT CGATCTTGGTTGCATGTAAAATTTGCTTCGTGGTGTCAGA
3' Flanking SequenceAGTAACTAGTTGATCAAAATATTGTGTCCACACTCTTTAAACTGAATTCGAATGACACTC GTAGAATTAGAGTAATTTAGAATATCGCTTTAGAAAGAAT
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.
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_F12N/A13.93GDsnp00002View
2Apple_HC64_F12N/A27.15GDsnp00002View
3Apple_HCMO_F12N/A8.78GDsnp00002View
4Apple_HGMM_Consenus2N/A23.85GDsnp00002View
5Apple Integrated map2N/A42.4GDsnp00002View
6Apple-RosBREED-3.9K-20192N/A26.23GDsnp00002View
7Apple-BB-F12N/A37.86GDsnp00002View
8Apple-NC-F12N/A30.69GDsnp00002View
9Apple-NCZFBB-consensus2N/A33GDsnp00002View
10Apple-ZF-F12N/A25.32GDsnp00002View
11Apple-consensus-Allard-2016LG2N/A35.07GDsnp00002View
12Apple-Honeycrisp_Consensus-F12N/A26.23GDsnp00002View
Sequence
>GDsnp00002 ID=GDsnp00002; Name=GDsnp00002; organism=Malus x domestica; type=genetic_marker; length=75bp
TTGGTTGCATGTAAAATTTGCTTCGTGGTGTCAGA[G/T]AGTAACTAGT
TGATCAAAATATTGTGTCCACACTC