GDsnp00062, GDsnp00062 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00062
dbSNP IDss475882478
SNP Array ID
480K SNP array for apple:AX-115181816
IRSC 9K SNP array for apple:GDsnp00062
50K SNP array for apple:AX-105210133
TypeSNP
SNP AllelesA/C
5' Flanking SequenceGCCCACAGGGTACTTCATTTCTCCT
3' Flanking SequenceGCCTTTTTTCAGAGTTGTCAACATG
SpeciesMalus x domestica
Publication[view all]
ContactCindy F. Verdu
Contact
NameDetails
Cindy F. Verdu
First name:Cindy
Last name:Verdu
Title:Researcher
Institution:INRA
Address:INRA, UMR1345 Institut de Recherche en Horticulture et Semences, Beaucouze, France
Country:France
Email:cindyverdu@gmail.com
Libraries
Library NameType
480K SNP array for appleSNP_chip
IRSC 9K SNP array for appleSNP_chip
50K SNP array for appleSNP_chip
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.
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.
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.
2014Verdu CF, Guyot S, Childebrand N, Bahut M, Celton J-M, Gaillard S, Lasserre-Zuber P, Troggio M, Guilet D, Laurens F. QTL Analysis and Candidate Gene Mapping for the Polyphenol Content in Cider Apple. PLoS ONE. 2014; 9(10):e107103.
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 map14N/A33.2GDsnp00062View
2Apple-FjxPL-F1-2013LG14N/A46.7GDsnp00062View
3Apple-RosBREED-3.9K-201914N/A44.03GDsnp00062View
4Apple-BB-F114N/A37.44GDsnp00062View
5Apple-NC-F114N/A51.65GDsnp00062View
6Apple-NCZFBB-consensus14N/A48.84GDsnp00062View
7Apple-ZF-F114N/A50.2GDsnp00062View
8Apple-MM-F114N/A31a475882478View
9Apple-X3259X3263-F114N/A48.75GD_SNP00062View
10Apple-GDxBr-F1-2013LG14N/A26.42GD_SNP00062View
11Apple-Honeycrisp_Consensus-F114N/A44.03GDsnp00062View
Sequence
>GDsnp00062 ID=GDsnp00062; Name=GDsnp00062; organism=Malus x domestica; type=genetic_marker; length=201bp
TTCAATTACTTCAGTTTAAAAAAAAAAAAGAAAAAAAAAGGGAAATCCAA
AATCCCCCAAGGAAGAAAGAAAGCTGCCCACAGGGTACTTCATTTCTCCT
MGCCTTTTTTCAGAGTTGTCAACATGCGTCGGTTCAAGTACTAGGACTGG
TGACAATATCTGTGATCATCTTTATCAAGGAGCAGAGCCCGCCCAAAAAA
T