GDsnp00099, GDsnp00099 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00099
Aliasss475882327
rs267615272
GD_SNP00099
GD_00099_L10_PA
dbSNP IDss475882327
SNP Array ID
480K SNP array for apple:GDsnp00099
IRSC 9K SNP array for apple:GDsnp00099
20K SNP array for apple:GDsnp00099
50K SNP array for apple:GDsnp00099
TypeSNP
SNP AllelesT/G
Probe 1GDsnp00099.probe: GTTCGTGTTGTTCATACTATGTACTAGTTGTTTGTAACTTCGTTTCTATA
5' Flanking SequenceAAGTAGGAACCATTCGCTTTCCACATCAAGCATATGTGAGATTAGATCAAAAACCAATTT TATTAATCAGAAGTTCGTGATCAATTGGTACACATTAAGA
3' Flanking SequenceTATAGAAACGAAGTTACAAACAACTAGTACATAGTATGAACAACACGAACAATTGTAAAC TGTTGATTGAAGTGAATTCACTAACGGTAGACCTACGATG
SpeciesMalus x domestica
PolymorphismP_ GDsnp00099
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.
2011Micheletti D, Troggio M, Zharkikh A, Costa F, Malnoy M, Velasco R, Salvi S. Genetic diversity of the genus Malus and implications for linkage mapping with SNPs. Tree Genetics & Genomes. 2011; 7(4):857-868.
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.
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
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
Relationships

This genetic_marker is located in the following QTL feature(s):

Feature NameUnique NameSpeciesType
dry matter contentq.DMC.RB-B10.Motueka-2010Malus x domesticaQTL


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

Feature NameUnique NameSpeciesType
GDsnp00099GDsnp00099Malus x domesticamarker_locus
GD_SNP00099GD_SNP00099Malus x domesticamarker_locus
GDsnp00099GDsnp00099-66.085Malus x domesticamarker_locus


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

Feature NameUnique NameSpeciesType
probeGDsnp00099.probeMalus x domesticaprobe


The following haplotype_block feature(s) contains this genetic_marker:

Feature NameUnique NameSpeciesType
Mdo-HB-10-51Mdo-HB-10-51Malus x domesticahaplotype_block


The following haplotype feature(s) contains this genetic_marker:

Feature NameUnique NameSpeciesType
2Mdo-HB-10-51_2Malus x domesticahaplotype
3Mdo-HB-10-51_3Malus x domesticahaplotype
4Mdo-HB-10-51_4Malus x domesticahaplotype
5Mdo-HB-10-51_5Malus x domesticahaplotype
6Mdo-HB-10-51_6Malus x domesticahaplotype
7Mdo-HB-10-51_7Malus x domesticahaplotype
8Mdo-HB-10-51_8Malus x domesticahaplotype
9Mdo-HB-10-51_9Malus x domesticahaplotype
10Mdo-HB-10-51_10Malus x domesticahaplotype
11Mdo-HB-10-51_11Malus x domesticahaplotype
12Mdo-HB-10-51_12Malus x domesticahaplotype
13Mdo-HB-10-51_13Malus x domesticahaplotype
14Mdo-HB-10-51_14Malus x domesticahaplotype
15Mdo-HB-10-51_15Malus x domesticahaplotype
16Mdo-HB-10-51_16Malus x domesticahaplotype
17Mdo-HB-10-51_17Malus x domesticahaplotype
18Mdo-HB-10-51_18Malus x domesticahaplotype
19Mdo-HB-10-51_19Malus x domesticahaplotype
20Mdo-HB-10-51_20Malus x domesticahaplotype
21Mdo-HB-10-51_21Malus x domesticahaplotype
22Mdo-HB-10-51_22Malus x domesticahaplotype
23Mdo-HB-10-51_23Malus x domesticahaplotype
24Mdo-HB-10-51_24Malus x domesticahaplotype
25Mdo-HB-10-51_25Malus x domesticahaplotype
26Mdo-HB-10-51_26Malus x domesticahaplotype
27Mdo-HB-10-51_27Malus x domesticahaplotype
28Mdo-HB-10-51_28Malus x domesticahaplotype
29Mdo-HB-10-51_29Malus x domesticahaplotype
30Mdo-HB-10-51_30Malus x domesticahaplotype
31Mdo-HB-10-51_31Malus x domesticahaplotype
32Mdo-HB-10-51_32Malus x domesticahaplotype
33Mdo-HB-10-51_33Malus x domesticahaplotype
34Mdo-HB-10-51_34Malus x domesticahaplotype
35Mdo-HB-10-51_35Malus x domesticahaplotype
36Mdo-HB-10-51_36Malus x domesticahaplotype
37Mdo-HB-10-51_37Malus x domesticahaplotype
38Mdo-HB-10-51_38Malus x domesticahaplotype
39Mdo-HB-10-51_39Malus x domesticahaplotype
40Mdo-HB-10-51_40Malus x domesticahaplotype
41Mdo-HB-10-51_41Malus x domesticahaplotype
42Mdo-HB-10-51_42Malus x domesticahaplotype
43Mdo-HB-10-51_43Malus x domesticahaplotype
44Mdo-HB-10-51_44Malus x domesticahaplotype
45Mdo-HB-10-51_45Malus x domesticahaplotype
46Mdo-HB-10-51_46Malus x domesticahaplotype
47Mdo-HB-10-51_47Malus x domesticahaplotype
48Mdo-HB-10-51_48Malus x domesticahaplotype
49Mdo-HB-10-51_49Malus x domesticahaplotype
50Mdo-HB-10-51_50Malus x domesticahaplotype
51Mdo-HB-10-51_51Malus x domesticahaplotype
52Mdo-HB-10-51_52Malus x domesticahaplotype
53Mdo-HB-10-51_53Malus x domesticahaplotype
54Mdo-HB-10-51_54Malus x domesticahaplotype
55Mdo-HB-10-51_55Malus x domesticahaplotype
56Mdo-HB-10-51_56Malus x domesticahaplotype
57Mdo-HB-10-51_57Malus x domesticahaplotype
58Mdo-HB-10-51_58Malus x domesticahaplotype
59Mdo-HB-10-51_59Malus x domesticahaplotype
60Mdo-HB-10-51_60Malus x domesticahaplotype
61Mdo-HB-10-51_61Malus x domesticahaplotype
62Mdo-HB-10-51_62Malus x domesticahaplotype
63Mdo-HB-10-51_63Malus x domesticahaplotype
64Mdo-HB-10-51_64Malus x domesticahaplotype
65Mdo-HB-10-51_65Malus x domesticahaplotype
66Mdo-HB-10-51_66Malus x domesticahaplotype
67Mdo-HB-10-51_67Malus x domesticahaplotype
68Mdo-HB-10-51_68Malus x domesticahaplotype
69Mdo-HB-10-51_69Malus x domesticahaplotype
70Mdo-HB-10-51_70Malus x domesticahaplotype
71Mdo-HB-10-51_71Malus x domesticahaplotype
72Mdo-HB-10-51_72Malus x domesticahaplotype
73Mdo-HB-10-51_73Malus x domesticahaplotype
74Mdo-HB-10-51_74Malus x domesticahaplotype
75Mdo-HB-10-51_75Malus x domesticahaplotype
76Mdo-HB-10-51_76Malus x domesticahaplotype
77Mdo-HB-10-51_77Malus x domesticahaplotype
78Mdo-HB-10-51_78Malus x domesticahaplotype
79Mdo-HB-10-51_79Malus x domesticahaplotype
80Mdo-HB-10-51_80Malus x domesticahaplotype
81Mdo-HB-10-51_81Malus x domesticahaplotype
82Mdo-HB-10-51_82Malus x domesticahaplotype
83Mdo-HB-10-51_83Malus x domesticahaplotype
84Mdo-HB-10-51_84Malus x domesticahaplotype
85Mdo-HB-10-51_85Malus x domesticahaplotype
86Mdo-HB-10-51_86Malus x domesticahaplotype
87Mdo-HB-10-51_87Malus x domesticahaplotype
88Mdo-HB-10-51_88Malus x domesticahaplotype
89Mdo-HB-10-51_89Malus x domesticahaplotype
90Mdo-HB-10-51_90Malus x domesticahaplotype
91Mdo-HB-10-51_91Malus x domesticahaplotype
92Mdo-HB-10-51_92Malus x domesticahaplotype
93Mdo-HB-10-51_93Malus x domesticahaplotype
94Mdo-HB-10-51_94Malus x domesticahaplotype
95Mdo-HB-10-51_95Malus x domesticahaplotype
96Mdo-HB-10-51_96Malus x domesticahaplotype
97Mdo-HB-10-51_97Malus x domesticahaplotype
98Mdo-HB-10-51_98Malus x domesticahaplotype
99Mdo-HB-10-51_99Malus x domesticahaplotype
100Mdo-HB-10-51_100Malus x domesticahaplotype
101Mdo-HB-10-51_101Malus x domesticahaplotype
102Mdo-HB-10-51_102Malus x domesticahaplotype
103Mdo-HB-10-51_103Malus x domesticahaplotype
104Mdo-HB-10-51_104Malus x domesticahaplotype
105Mdo-HB-10-51_105Malus x domesticahaplotype
106Mdo-HB-10-51_106Malus x domesticahaplotype
107Mdo-HB-10-51_107Malus x domesticahaplotype
108Mdo-HB-10-51_108Malus x domesticahaplotype
109Mdo-HB-10-51_109Malus x domesticahaplotype
110Mdo-HB-10-51_110Malus x domesticahaplotype
111Mdo-HB-10-51_111Malus x domesticahaplotype
112Mdo-HB-10-51_112Malus x domesticahaplotype
113Mdo-HB-10-51_113Malus x domesticahaplotype
114Mdo-HB-10-51_114Malus x domesticahaplotype
115Mdo-HB-10-51_115Malus x domesticahaplotype
116Mdo-HB-10-51_116Malus x domesticahaplotype
117Mdo-HB-10-51_117Malus x domesticahaplotype
118Mdo-HB-10-51_118Malus x domesticahaplotype
119Mdo-HB-10-51_119Malus x domesticahaplotype
120Mdo-HB-10-51_120Malus x domesticahaplotype
121Mdo-HB-10-51_121Malus x domesticahaplotype
122Mdo-HB-10-51_122Malus x domesticahaplotype
123Mdo-HB-10-51_123Malus x domesticahaplotype
124Mdo-HB-10-51_124Malus x domesticahaplotype
125Mdo-HB-10-51_125Malus x domesticahaplotype
126Mdo-HB-10-51_126Malus x domesticahaplotype
127Mdo-HB-10-51_127Malus x domesticahaplotype
128Mdo-HB-10-51_128Malus x domesticahaplotype
129Mdo-HB-10-51_129Malus x domesticahaplotype
130Mdo-HB-10-51_130Malus x domesticahaplotype
131Mdo-HB-10-51_131Malus x domesticahaplotype
132Mdo-HB-10-51_132Malus x domesticahaplotype
133Mdo-HB-10-51_133Malus x domesticahaplotype
134Mdo-HB-10-51_134Malus x domesticahaplotype
135Mdo-HB-10-51_135Malus x domesticahaplotype
136Mdo-HB-10-51_136Malus x domesticahaplotype
137Mdo-HB-10-51_137Malus x domesticahaplotype
138Mdo-HB-10-51_138Malus x domesticahaplotype
139Mdo-HB-10-51_139Malus x domesticahaplotype
140Mdo-HB-10-51_140Malus x domesticahaplotype
141Mdo-HB-10-51_141Malus x domesticahaplotype
142Mdo-HB-10-51_142Malus x domesticahaplotype
143Mdo-HB-10-51_143Malus x domesticahaplotype
144Mdo-HB-10-51_144Malus x domesticahaplotype
145Mdo-HB-10-51_145Malus x domesticahaplotype
146Mdo-HB-10-51_146Malus x domesticahaplotype
147Mdo-HB-10-51_147Malus x domesticahaplotype
148Mdo-HB-10-51_148Malus x domesticahaplotype
149Mdo-HB-10-51_149Malus x domesticahaplotype
150Mdo-HB-10-51_150Malus x domesticahaplotype
151Mdo-HB-10-51_151Malus x domesticahaplotype
152Mdo-HB-10-51_152Malus x domesticahaplotype
153Mdo-HB-10-51_153Malus x domesticahaplotype
154Mdo-HB-10-51_154Malus x domesticahaplotype
155Mdo-HB-10-51_155Malus x domesticahaplotype
156Mdo-HB-10-51_156Malus x domesticahaplotype
157Mdo-HB-10-51_157Malus x domesticahaplotype
158Mdo-HB-10-51_158Malus x domesticahaplotype
159Mdo-HB-10-51_159Malus x domesticahaplotype
160Mdo-HB-10-51_160Malus x domesticahaplotype
161Mdo-HB-10-51_161Malus x domesticahaplotype
162Mdo-HB-10-51_162Malus x domesticahaplotype
163Mdo-HB-10-51_163Malus x domesticahaplotype
164Mdo-HB-10-51_164Malus x domesticahaplotype
165Mdo-HB-10-51_165Malus x domesticahaplotype


Analyses
This genetic_marker is derived from or has results from the following analyses
Analysis NameDate Performed
RosBREED SNP development2011-01-01
Sequence
>GDsnp00099 ID=GDsnp00099|Name=GDsnp00099|organism=Malus x domestica|type=genetic_marker|length=201bp
AAGTAGGAACCATTCGCTTTCCACATCAAGCATATGTGAGATTAGATCAA
AAACCAATTTTATTAATCAGAAGTTCGTGATCAATTGGTACACATTAAGA
MTATAGAAACGAAGTTACAAACAACTAGTACATAGTATGAACAACACGAA
CAATTGTAAACTGTTGATTGAAGTGAATTCACTAACGGTAGACCTACGAT
G
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map10N/A71.1GDsnp00099View
2Apple_HCGA_F110N/A14.7GDsnp00099View
3Apple_HC64_F110N/A15.52GDsnp00099View
4Apple_HCMO_F110N/A52.89GDsnp00099View
5Apple_HGMM_Consenus10N/A71.62GDsnp00099View
6Apple-B-F1-2014B10N/A85.8GDsnp00099View
7Apple-RosBREED-3.9K-201910N/A66.09GDsnp00099View
8Apple-GB-F1LG_10N/A74.8GD_SNP00099View
9Apple-X5210X8402-F1-X5210LG10N/A66.1GD_SNP00099View
10Apple-GDxBr-F1-2013LG10N/A74.64GD_SNP00099View
11Apple-Honeycrisp_Consensus-F110N/A66.09GDsnp00099View
Alignments
Feature NameTypeLocationAnalysis
MDC019003.186 contig MDC019003.186:16994..16994. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr10 chromosome Chr10:37055528..37055528- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr10 chromosome Chr10:37055478..37055578- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr10 chromosome Chr10:37055529..37055529. Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation