GDsnp00543, GDsnp00543 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00543
dbSNP IDss475882515
SNP Array ID
480K SNP array for apple:AX-105181661
IRSC 9K SNP array for apple:GDsnp00543
20K SNP array for apple:GDsnp00543
50K SNP array for apple:AX-105181661
TypeSNP
SNP AllelesA/G
Probe 1GDsnp00543.probe: CAAAATCCGGTTTGAAATAACTGTCATTGAATTTCTATGCCAAGTGCATT
5' Flanking SequenceTAAATTGAAGCGTGACTTTACGATATGCTCCTTACCTTTCTGGCATTTGCCAAAATCCGG TTTGAAATAACTGTCATTGAATTTCTATGCCAAGTGCATT
3' Flanking SequenceCTGCATTTTATCAGGATGGCTTCTTATTTTAGCATCTAATCTACATATTAATTTCATGCA GGTGATCCAAGATTGTTTGAGCAATGATCATGTTGGTAGT
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 map15N/A40.3GDsnp00543View
2Apple-RosBREED-3.9K-201915N/A39.96GDsnp00543View
3Apple-BB-F115N/A49.08GDsnp00543View
4Apple-NC-F115N/A44.98GDsnp00543View
5Apple-NCZFBB-consensus15N/A53.44GDsnp00543View
6Apple-ZF-F115N/A44.04GDsnp00543View
7Apple-consensus-Allard-2016LG15N/A46.19GDsnp00543View
8Apple-Honeycrisp_Consensus-F115N/A39.96GDsnp00543View
9Pear-PH-CG-2017LG15N/A94.39GDsnp00543View
Sequence
>GDsnp00543 ID=GDsnp00543; Name=GDsnp00543; organism=Malus x domestica; type=genetic_marker; length=75bp
AATAACTGTCATTGAATTTCTATGCCAAGTGCATT[A/G]CTGCATTTTA
TCAGGATGGCTTCTTATTTTAGCAT
Alignments
Feature NameTypeLocationAnalysis
MDC000307.241 contig MDC000307.241:8426..8426. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr15 chromosome Chr15:13041589..13041589+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr15 chromosome Chr15:13041539..13041639- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation