GDsnp02087, GDsnp02087 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp02087
dbSNP IDss475882576
SNP Array ID
480K SNP array for apple:AX-115190953
IRSC 9K SNP array for apple:GDsnp02087
20K SNP array for apple:GDsnp02087
50K SNP array for apple:AX-105219950
TypeSNP
SNP AllelesA/G
Probe 1GDsnp02087.probe: ATGCTTGACTGCACATTATAGGAGTCATTTGCCCTTACAATTTGTACTTC
5' Flanking SequenceGATCTGGTTTAAACAGTTCTACTGCTGGAGTACTAGCAGAGTTTTCAGTTTATTTGAATG ATGCTTTTCAATATCCCTCTCCCGTTGAAATAGAAAGGCT
3' Flanking SequenceGAAGTACAAATTGTAAGGGCAAATGACTCCTATAATGTGCAGTCAAGCATATTTCCTATG CAAACCATCAATGGTATAAATGGTAGCTAGCAATTTTTGA
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
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
MDC004996.350contigMDC004996.350:13926..13926 .Malus x domestica Whole Genome v1.0 Assembly & Annotationn/a
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 Integrated map16N/A41.2GDsnp02087View
2Apple-RGxBr-Braeburn-F1LG16N/A32.6GDsnp02087View
3Apple-C16xC17-F1-201216N/A57.12GDsnp02087View
4Pear-PM-F1-PEAR316N/A14.37GDsnp02087View
5Apple-B-F1-2014B16N/A13.7GDsnp02087View
6Apple-RosBREED-3.9K-201916N/A42.96GDsnp02087View
7Apple-consensus-Allard-2016LG16N/A42.15GDsnp02087View
8Apple-Honeycrisp_Consensus-F116N/A42.96GDsnp02087View
Sequence
>GDsnp02087 ID=GDsnp02087; Name=GDsnp02087; organism=Malus x domestica; type=genetic_marker; length=75bp
TTTCAATATCCCTCTCCCGTTGAAATAGAAAGGCT[C/T]GAAGTACAAA
TTGTAAGGGCAAATGACTCCTATAA