GDsnp00377, GDsnp00377 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00377
dbSNP IDss475882345
SNP Array ID
480K SNP array for apple:AX-105196012
IRSC 9K SNP array for apple:GDsnp00377
20K SNP array for apple:GDsnp00377
50K SNP array for apple:AX-105196012
TypeSNP
SNP AllelesA/C
Probe 1GDsnp00377.probe: CTCTTGGAGCCCATCAAGCAACAGTTCCCTATTCTCTCTTACGCTGACTT
5' Flanking SequenceCGGCTGAGCAATCTCACGGGGCCAACAATGGCCTCGACATCGCCGTCAGGCTCTTGGAGC CCATCAAGCAACAGTTCCCTATTCTCTCTTACGCTGACTT
3' Flanking SequenceTACCAGGTAATTCAAATATAAATAGTTAACAAAATCTTATATATGAAATTTTAATTCGGA TTTATTTGATTGGAAACAATAAACCAGATATTAATTTTTA
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 map11N/A27.8GDsnp00377View
2Apple-RosBREED-3.9K-201911N/A22.07GDsnp00377View
3Apple-Honeycrisp_Consensus-F111N/A22.07GDsnp00377View
4Apple-GDxBr-F1-2013LG11N/A40.17GD_SNP00377View
Sequence
>GDsnp00377 ID=GDsnp00377; Name=GDsnp00377; organism=Malus x domestica; type=genetic_marker; length=75bp
AAGCAACAGTTCCCTATTCTCTCTTACGCTGACTT[A/C]TACCAGGTAA
TTCAAATATAAATAGTTAACAAAAT
Alignments
Feature NameTypeLocationAnalysis
MDC011946.321 contig MDC011946.321:10993..10993. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr11 chromosome Chr11:11197963..11197963+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr11 chromosome Chr11:11197913..11198013+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation