GDsnp00390, GDsnp00390 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00390
dbSNP IDss475882441
SNP Array ID
480K SNP array for apple:AX-105224487
IRSC 9K SNP array for apple:GDsnp00390
20K SNP array for apple:GDsnp00390
50K SNP array for apple:AX-105224487
TypeSNP
SNP AllelesA/G
Probe 1GDsnp00390.probe: TCCCATGAACCGCCATCATCCTTGAAGAAGTTGTTTGCGTTTGGGGACTG
5' Flanking SequenceAAATAAGCTGGTTTGAGTACCAGGAAAGGAAGAAATCACCATATGGAGACTCCCATGAAC CGCCATCATCCTTGAAGAAGTTGTTTGCGTTTGGGGACTG
3' Flanking SequenceTCGTAGCTAGGAACATCATGAGGACCACCAAGACCCCACAAAGGGTTTCCGGCTGCTTCA GCGTGTTGCTTAAGAATGCTAAGCATGTTTTCATCATAAC
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 map13N/A53.3GDsnp00390View
2Apple-RGTxGD-F1-2015GD_13N/A47.52GDsnp00390View
3Apple-RosBREED-3.9K-201913N/A42.45GDsnp00390View
4Apple-NC-F113N/A68.59GDsnp00390View
5Apple-NCZFBB-consensus13N/A56.22GDsnp00390View
6Apple-ZF-F113N/A58.1GDsnp00390View
7Apple-Honeycrisp_Consensus-F113N/A42.45GDsnp00390View
Sequence
>GDsnp00390 ID=GDsnp00390; Name=GDsnp00390; organism=Malus x domestica; type=genetic_marker; length=75bp
TCATCCTTGAAGAAGTTGTTTGCGTTTGGGGACTG[A/G]TCGTAGCTAG
GAACATCATGAGGACCACCAAGACC
Alignments
Feature NameTypeLocationAnalysis
MDC013440.247 contig MDC013440.247:8878..8878. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr13 chromosome Chr13:14340166..14340166- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr13 chromosome Chr13:14340116..14340216- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr13 chromosome Chr13:14340168..14340168. Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation