GDsnp00467, GDsnp00467 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00467
dbSNP IDss475882939
SNP Array ID
480K SNP array for apple:AX-105182244
IRSC 9K SNP array for apple:GDsnp00467
20K SNP array for apple:GDsnp00467
50K SNP array for apple:AX-105182244
TypeSNP
SNP AllelesT/C
Probe 1GDsnp00467.probe: CCCCCCAATGTAACAAAATAAAAACACAATCTTAATTATACAGCCATCTA
5' Flanking SequenceCACTAACTACTCCCTGTTTGAAGGAACAACACCATATTATAGCCCAAATGCCCCCCAATG TAACAAAATAAAAACACAATCTTAATTATACAGCCATCTA
3' Flanking SequenceATAGAATTAAGATACATATCAGTTTAGTTAGCACAAATTAACTAAATTTGTTCTTCCGAT TATAACAGATAAATAATTAGAGTTTACATAACAAAGTATG
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.
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 map9N/A60.2GDsnp00467View
2Apple-RGxBr-Braeburn-F1LG9N/A60.3GDsnp00467View
3Pear-PM-F1-Moonglow9N/A48.45GDsnp00467View
4Apple-B-F1-2014B9N/A60.3GDsnp00467View
5Apple-RosBREED-3.9K-20199N/A55.84GDsnp00467View
6Apple-consensus-Allard-2016LG9N/A63.08GDsnp00467View
7Apple-Honeycrisp_Consensus-F19N/A55.84GDsnp00467View
8Pear-PH-CG-2017LG9N/A84.68GDsnp00467View
9Apple-GDxBr-F1-2013LG9N/A60.5GD_SNP00467View
Sequence
>GDsnp00467 ID=GDsnp00467; Name=GDsnp00467; organism=Malus x domestica; type=genetic_marker; length=75bp
AAATAAAAACACAATCTTAATTATACAGCCATCTA[C/T]ATAGAATTAA
GATACATATCAGTTTAGTTAGCACA
Alignments
Feature NameTypeLocationAnalysis
MDC017151.179 contig MDC017151.179:439..439. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr09 chromosome Chr09:32577513..32577513- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr09 chromosome Chr09:32577515..32577515. Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation