GDsnp00250, GDsnp00250 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00250
Aliasss475882279
rs267615224
GD_00250_L1_PA
GD_SNP00250
GD_SNP00250_F
dbSNP IDss475882279
SNP Array ID
480K SNP array for apple:AX-105182293
IRSC 9K SNP array for apple:GDsnp00250
20K SNP array for apple:GDsnp00250
TypeSNP
SNP AllelesT/C
Probe 1GDsnp00250.probe: CAAAGATCTGTAGTTGCCCTAGCTACCATCAAAGCCAACCAACATGACTT
5' Flanking SequenceACACGCTTAAATCGGAAAACAACACAAAGATAAAAGATTGCGGATACTGCCAAAGATCTG TAGTTGCCCTAGCTACCATCAAAGCCAACCAACATGACTT
CCATCAAAGCCAACCA ACATGACTT
3' Flanking SequenceCAAATTTCAATTAGCTTTTTCGTCGTCGCTTGCGTCATCTTCGTTGGTAGTAGCAACAAC ATGGTGACCACCAACTTGACCACCACCAATGGTATCTCCG
CAAATTTCAATTAGCT TTTTCGTCG
SpeciesMalus x domestica
Publication[view all]
ContactMichela Troggio
Cindy F. Verdu
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.
2012Chagné D, Crowhurst RN, Troggio M, Davey MW, Gilmore B, Lawley C, Vanderzande S, Hellens RP, Kumar S, Cestaro A, Velasco R, Main D, Rees JD, Iezzoni A, Mockler T, Wilhelm L, Van de Weg E, Gardiner SE, Bassil N, Peace C. Genome-wide SNP detection, validation, and development of an 8K SNP array for apple. PloS one. 2012; 7(2):e31745.
2014Verdu CF, Guyot S, Childebrand N, Bahut M, Celton J-M, Gaillard S, Lasserre-Zuber P, Troggio M, Guilet D, Laurens F. QTL Analysis and Candidate Gene Mapping for the Polyphenol Content in Cider Apple. PLoS ONE. 2014; 9(10):e107103.
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
GDsnp00250GDsnp00250Malus x domesticamarker_locus
GD_SNP00250GD_SNP00250Malus x domesticamarker_locus
GDsnp00250GDsnp00250-27.81Malus x domesticamarker_locus


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

Feature NameUnique NameSpeciesType
probeGDsnp00250.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
>GDsnp00250 ID=GDsnp00250|Name=GDsnp00250|organism=Malus x domestica|type=genetic_marker|length=201bp
ACACGCTTAAATCGGAAAACAACACAAAGATAAAAGATTGCGGATACTGC
CAAAGATCTGTAGTTGCCCTAGCTACCATCAAAGCCAACCAACATGACTT
YCAAATTTCAATTAGCTTTTTCGTCGTCGCTTGCGTCATCTTCGTTGGTA
GTAGCAACAACATGGTGACCACCAACTTGACCACCACCAATGGTATCTCC
G
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map1N/A38.5GDsnp00250View
2Apple-FjxPL-F1-2013LG1N/A41.31GDsnp00250View
3Apple-X3259X3263-F11N/A44.29GD_SNP00250View
4Apple-GDxBr-F1-2013LG1N/A49.02GD_SNP00250View
5Apple-Honeycrisp_Consensus-F11N/A27.81GDsnp00250-27.81View
Alignments
Feature NameTypeLocationAnalysis
MDC011767.249 contig MDC011767.249:14100..14100. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr01 chromosome Chr01:23580422..23580422+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr01 chromosome Chr01:23580372..23580472- 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
Cindy F. Verdu
First name:Cindy
Last name:Verdu
Title:Researcher
Institution:INRA
Address:INRA, UMR1345 Institut de Recherche en Horticulture et Semences, Beaucouze, France
Country:France
Email:cindyverdu@gmail.com