GDsnp00368, GDsnp00368 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00368
dbSNP IDss475882420
SNP Array ID
480K SNP array for apple:AX-115181981
IRSC 9K SNP array for apple:GDsnp00368
20K SNP array for apple:GDsnp00368
50K SNP array for apple:AX-105205859
TypeSNP
SNP AllelesA/G
Probe 1GDsnp00368.probe: CAAGTATTCTTCAGTGATCATGTTGCCAACGATTTCAACACCCTTTTCGC
5' Flanking SequenceACGAAGAATGCACGAAATGAAGCGAGGACTTGGGGAATAACTGGCCGTGGAAAGATCCCG GCACGCCAGCTGCAAAGTACTGCCTTTCCGGAGGCAAAGA
3' Flanking SequenceGCGAAAAGGGTGTTGAAATCGTTGGCAACATGATCACTGAAGAATACTTGGAATTCAGGC ATTTGGGAGGAGATGCATTGGGATTGGTACTTGTGGTTCA
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.
2013Troggio M, Surbanovski N, Bianco L, Moretto M, Giongo L, Banchi E, Viola R, Fernández FF, Costa F, Velasco R, Cestaro A, Sargent DJ. Evaluation of SNP Data from the Malus Infinium Array Identifies Challenges for Genetic Analysis of Complex Genomes of Polyploid Origin. PloS one. 2013; 8(6):e67407.
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 map13N/A2.2GDsnp00368View
2Apple-M432-201313N/A0GDsnp00368View
3Apple-M432-2013-physical-Malus-domestica13N/A366899GDsnp00368View
4Apple-RGTxGD-F1-2015RGT_13N/A0GDsnp00368View
Sequence
>GDsnp00368 ID=GDsnp00368; Name=GDsnp00368; organism=Malus x domestica; type=genetic_marker; length=75bp
CCAGCTGCAAAGTACTGCCTTTCCGGAGGCAAAGA[C/T]GCGAAAAGGG
TGTTGAAATCGTTGGCAACATGATC
Alignments
Feature NameTypeLocationAnalysis
MDC017243.173 contig MDC017243.173:7844..7844. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr13 chromosome Chr13:467344..467344+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr13 chromosome Chr13:467294..467394+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr13 chromosome Chr13:467346..467346. Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation