GDsnp00453, GDsnp00453 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00453
dbSNP IDss475882481
SNP Array ID
480K SNP array for apple:AX-115181986
IRSC 9K SNP array for apple:GDsnp00453
20K SNP array for apple:GDsnp00453
50K SNP array for apple:AX-105220430
TypeSNP
SNP AllelesT/C
Probe 1GDsnp00453.probe: ATATGATTTGAGTGTAGGTATGCATCAGTGGTAGCCATAGAGAGCACATC
5' Flanking SequenceTTTGTTCTTACCACTCAAGGGCTGGTTGGAGCACCATCTCCATGAGAGTGAGGAAAGAGT AAATAATCCAATAGGCAAGCCACTGCTGATCATCTAGTTT
3' Flanking SequenceGATGTGCTCTCTATGGCTACCACTGATGCATACCTACACTCAAATCATATAAACATAAAT GCCCATTGCAACAAAAACCAAAAATTGGTACAACTTCATC
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.
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.
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-RGxBr-Braeburn-F1LG14N/A34.8GDsnp00453View
2Apple Integrated map14N/A39.2GDsnp00453View
3Apple-B-F1-2014B14N/A34.8GDsnp00453View
4Apple-FjxPL-F1-2013LG14N/A50.73GDsnp00453View
5Apple-MM-F114N/A31.7a475882481View
6Apple-Honeycrisp_Consensus-F114N/A45.99GDsnp00453View
7Apple-GDxBr-F1-2013LG14N/A30.37GD_SNP00453View
Sequence
>GDsnp00453 ID=GDsnp00453; Name=GDsnp00453; organism=Malus x domestica; type=genetic_marker; length=75bp
ATCCAATAGGCAAGCCACTGCTGATCATCTAGTTT[A/G]GATGTGCTCT
CTATGGCTACCACTGATGCATACCT
Alignments
Feature NameTypeLocationAnalysis
MDC000289.686 contig MDC000289.686:22319..22319. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr14 chromosome Chr14:24746579..24746679+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr14 chromosome Chr14:24746629..24746629. Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation