GDsnp00332, GDsnp00332 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00332
dbSNP IDss475882947
SNP Array ID
480K SNP array for apple:AX-115181976
IRSC 9K SNP array for apple:GDsnp00332
20K SNP array for apple:GDsnp00332
TypeSNP
SNP AllelesA/C
Probe 1GDsnp00332.probe: ATTGGCATACTCGAGAATTTTCGTAACAAGAGATGTCCTACACGGGGCTA
5' Flanking SequenceAATTCATGATCGCACTACTAGTCGTTANATATAACAATGCATACAATATAATTGGCATAC TCGAGAATTTTCGTAACAAGAGATGTCCTACACGGGGCTA
3' Flanking SequenceGAGGACTAAAGAGTGACTCAATATCTGTTCTGGGGAAATAGTCCAAAATAATTTGAACAC AATCCGATTGCAATTTGCAATGGTATCCTTCATTGATTGG
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
Libraries
Library NameType
20K SNP array for appleSNP_chip
480K SNP array for appleSNP_chip
IRSC 9K 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.
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.
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map9N/A73.3GDsnp00332View
2Apple-C16xC17-F1-20129N/A82.39GDsnp00332View
3Apple-RGTxGD-F1-2015GD_9N/A76.02GDsnp00332View
4Apple-RosBREED-3.9K-20199N/A61.06GDsnp00332View
5Apple-consensus-Allard-2016LG9N/A71.06GDsnp00332View
6Apple-Honeycrisp_Consensus-F19N/A61.06GDsnp00332View
Sequence
>GDsnp00332 ID=GDsnp00332; Name=GDsnp00332; organism=Malus x domestica; type=genetic_marker; length=75bp
AATTTTCGTAACAAGAGATGTCCTACACGGGGCTA[A/C]GAGGACTAAA
GAGTGACTCAATATCTGTTCTGGGG
Alignments
Feature NameTypeLocationAnalysis
MDC021758.188 contig MDC021758.188:1738..1738. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr09 chromosome Chr09:37566429..37566429+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr09 chromosome Chr09:37566379..37566479+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation