GDsnp02575, GDsnp02575 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp02575
dbSNP IDss475882896
SNP Array ID
480K SNP array for apple:AX-115182110
IRSC 9K SNP array for apple:GDsnp02575
20K SNP array for apple:GDsnp02575
50K SNP array for apple:AX-105187897
TypeSNP
SNP AllelesT/C
Probe 1GDsnp02575.probe: GAACAATATCATCGTCAGTTCTTACATCGTTTTTGGGAGGATGGGCAGGA
5' Flanking SequenceAGACTCGGCAGCGAGATTGTCGTCATGATCGAATAATTCGTTTGAAACTTGAACAATATC ATCGTCAGTTCTTACATCGTTTTTGGGAGGATGGGCAGGA
3' Flanking SequenceGAGGGCTTGAAGATTGTCGGAAGCTCAACTTCTTCGTCTTCCTTAGAGAAATTTGAGGTT CCACCTTAAAATCAAGCAGAAATATGGAGAGTAACCCAAC
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 Integrated map8N/A21.1GDsnp02575View
2Apple-consensus-Allard-2016LG8N/A51GDsnp02575View
3Apple-GDxBr-F1-2013LG8N/A10.07GD_SNP02575View
Sequence
>GDsnp02575 ID=GDsnp02575; Name=GDsnp02575; organism=Malus x domestica; type=genetic_marker; length=75bp
CAGTTCTTACATCGTTTTTGGGAGGATGGGCAGGA[C/T]GAGGGCTTGA
AGATTGTCGGAAGCTCAACTTCTTC
Alignments
Feature NameTypeLocationAnalysis
MDC022313.197 contig MDC022313.197:10703..10703. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr08 chromosome Chr08:25701079..25701079+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr08 chromosome Chr08:25701029..25701129- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation