GDsnp02051, GDsnp02051 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp02051
Aliasss475882302
rs267615247
GD_02051_L10_PA
c475882302
dbSNP IDss475882302
SNP Array ID
480K SNP array for apple:AX-115184072
IRSC 9K SNP array for apple:GDsnp02051
20K SNP array for apple:GDsnp02051
TypeSNP
SNP AllelesT/C
Probe 1GDsnp02051.probe: GTCATGTATGATGGGTTTGAAGTGTTCAGCACGTATTTAATCGCTCACAG
5' Flanking SequenceGGAAATGTGAAACAGTAGACATCTTCTGAACAAGTTTGTAACGGAGTGGTNATTNATGAA TGCATATAGAAATGCAAGTGGTGATTCACAAAATTGCAGA
3' Flanking SequenceCTGTGAGCGATTAAATACGTGCTGAACACTTCAAACCCATCATACATGACAAAGCATGGA GTACAAATTCCGGCACAAGCAGGAAGAAACAGTGAAGCAT
SpeciesMalus x domestica
Publication[view all]
ContactMichela Troggio
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.
Relationships

The following marker_locus feature(s) are an instance of this genetic_marker:

Feature NameUnique NameSpeciesType
GDsnp02051GDsnp02051Malus x domesticamarker_locus
c475882302c475882302Malus x domesticamarker_locus
GDsnp02051GDsnp02051-11.401Malus x domesticamarker_locus


The following probe feature(s) are associated with this genetic_marker:

Feature NameUnique NameSpeciesType
probeGDsnp02051.probeMalus x domesticaprobe


Analyses
This genetic_marker is derived from or has results from the following analyses
Analysis NameDate Performed
RosBREED SNP development2011-01-01
Sequence
>GDsnp02051 ID=GDsnp02051|Name=GDsnp02051|organism=Malus x domestica|type=genetic_marker|length=75bp
ATAGAAATGCAAGTGGTGATTCACAAAATTGCAGA[A/G]CTGTGAGCGA
TTAAATACGTGCTGAACACTTCAAA
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map10N/A15.3GDsnp02051View
2Apple_HCGA_F110N/A57.16GDsnp02051View
3Apple_HC64_F110N/A77.55GDsnp02051View
4Apple_HCMO_F110N/A15.26GDsnp02051View
5Apple_HGMM_Consenus10N/A12.6GDsnp02051View
6Apple-FjxPL-F1-2013LG10N/A16.34GDsnp02051View
7Apple-MM-F110N/A15.7c475882302View
8Apple-Honeycrisp_Consensus-F110N/A11.4GDsnp02051-11.401View
Alignments
Feature NameTypeLocationAnalysis
MDC015812.202 contig MDC015812.202:8120..8120. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr10 chromosome Chr10:6620407..6620407+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr10 chromosome Chr10:6620357..6620456+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
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