GDsnp00039, GDsnp00039 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00039
dbSNP IDss475882602
SNP Array ID
480K SNP array for apple:AX-105190340
IRSC 9K SNP array for apple:GDsnp00039
20K SNP array for apple:GDsnp00039
50K SNP array for apple:AX-105190340
TypeSNP
SNP AllelesA/G
Probe 1GDsnp00039.probe: ACGTGGTCATATCGAATTAGTTGAATCATTATGTACGCCAGAAACTTACT
5' Flanking SequenceGATAACACTGAACTATACACGTGTTATGCAAATAAAATAGGAGCCAAACCACGTGGTCAT ATCGAATTAGTTGAATCATTATGTACGCCAGAAACTTACT
3' Flanking SequenceTTTTCGTTTTAATTTTGACATAACGGAGATTATAACNAAAAAATTAAATNTAAAAGTAGG AACAAATAGTTTACTTAAACTATTGGAATAAAGAAAAAGT
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.
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_HCGA_F117N/A46.03GDsnp00039View
2Apple_HC64_F117N/A21.87GDsnp00039View
3Apple_HCMO_F117N/A167.18GDsnp00039View
4Apple_HGMM_Consenus17N/A28.64GDsnp00039View
5Apple Integrated map17N/A28.2GDsnp00039View
6Apple-RosBREED-3.9K-201917N/A23.51GDsnp00039View
7Apple-MM-F117N/A21.6c475882602View
8Apple-Honeycrisp_Consensus-F117N/A23.51GDsnp00039View
Sequence
>GDsnp00039 ID=GDsnp00039; Name=GDsnp00039; organism=Malus x domestica; type=genetic_marker; length=75bp
ATTAGTTGAATCATTATGTACGCCAGAAACTTACT[A/G]TTTTCGTTTT
AATTTTGACATAACGGAGATTATAA