GDsnp00062, GDsnp00062 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp00062
Aliasss475882478
rs267615423
a475882478
GD_SNP00062
GD_SNP00062_FM
AX-105210133
dbSNP IDss475882478
SNP Array ID
480K SNP array for apple:GDsnp00062
IRSC 9K SNP array for apple:GDsnp00062
50K SNP array for apple:GDsnp00062
TypeSNP
SNP AllelesA/C
5' Flanking SequenceGCCCACAGGGTACTTCATTTCTCCT
3' Flanking SequenceGCCTTTTTTCAGAGTTGTCAACATG
SpeciesMalus x domestica
Publication[view all]
ContactCindy 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.
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.
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.
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
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
Libraries
Library NameType
480K SNP array for appleSNP_chip
IRSC 9K SNP array for appleSNP_chip
50K SNP array for appleSNP_chip
Relationships

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

Feature NameUnique NameSpeciesType
flesh browning rateqFB.FjxPL-LG14.T60aMalus x domesticaQTL


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

Feature NameUnique NameSpeciesType
GDsnp00062GDsnp00062Malus x domesticamarker_locus
a475882478a475882478Malus x domesticamarker_locus
GD_SNP00062GD_SNP00062Malus x domesticamarker_locus
GDsnp00062GDsnp00062-44.033Malus x domesticamarker_locus


The following haplotype_block feature(s) contains this genetic_marker:

Feature NameUnique NameSpeciesType
Mdo-HB-14-23Mdo-HB-14-23Malus x domesticahaplotype_block


The following haplotype feature(s) contains this genetic_marker:

Feature NameUnique NameSpeciesType
2Mdo-HB-14-23_2Malus x domesticahaplotype
3Mdo-HB-14-23_3Malus x domesticahaplotype
4Mdo-HB-14-23_4Malus x domesticahaplotype
5Mdo-HB-14-23_5Malus x domesticahaplotype
6Mdo-HB-14-23_6Malus x domesticahaplotype
7Mdo-HB-14-23_7Malus x domesticahaplotype
8Mdo-HB-14-23_8Malus x domesticahaplotype
9Mdo-HB-14-23_9Malus x domesticahaplotype
10Mdo-HB-14-23_10Malus x domesticahaplotype
11Mdo-HB-14-23_11Malus x domesticahaplotype
12Mdo-HB-14-23_12Malus x domesticahaplotype
13Mdo-HB-14-23_13Malus x domesticahaplotype
14Mdo-HB-14-23_14Malus x domesticahaplotype
15Mdo-HB-14-23_15Malus x domesticahaplotype
16Mdo-HB-14-23_16Malus x domesticahaplotype
17Mdo-HB-14-23_17Malus x domesticahaplotype
18Mdo-HB-14-23_18Malus x domesticahaplotype
19Mdo-HB-14-23_19Malus x domesticahaplotype
20Mdo-HB-14-23_20Malus x domesticahaplotype
21Mdo-HB-14-23_21Malus x domesticahaplotype
22Mdo-HB-14-23_22Malus x domesticahaplotype
23Mdo-HB-14-23_23Malus x domesticahaplotype
24Mdo-HB-14-23_24Malus x domesticahaplotype
25Mdo-HB-14-23_25Malus x domesticahaplotype
26Mdo-HB-14-23_26Malus x domesticahaplotype
27Mdo-HB-14-23_27Malus x domesticahaplotype
28Mdo-HB-14-23_28Malus x domesticahaplotype
29Mdo-HB-14-23_29Malus x domesticahaplotype
30Mdo-HB-14-23_30Malus x domesticahaplotype
31Mdo-HB-14-23_31Malus x domesticahaplotype
32Mdo-HB-14-23_32Malus x domesticahaplotype
33Mdo-HB-14-23_33Malus x domesticahaplotype
34Mdo-HB-14-23_34Malus x domesticahaplotype
35Mdo-HB-14-23_35Malus x domesticahaplotype
36Mdo-HB-14-23_36Malus x domesticahaplotype
37Mdo-HB-14-23_37Malus x domesticahaplotype
38Mdo-HB-14-23_38Malus x domesticahaplotype
39Mdo-HB-14-23_39Malus x domesticahaplotype
40Mdo-HB-14-23_40Malus x domesticahaplotype
41Mdo-HB-14-23_41Malus x domesticahaplotype
42Mdo-HB-14-23_42Malus x domesticahaplotype
43Mdo-HB-14-23_43Malus x domesticahaplotype
44Mdo-HB-14-23_44Malus x domesticahaplotype
45Mdo-HB-14-23_45Malus x domesticahaplotype
46Mdo-HB-14-23_46Malus x domesticahaplotype
47Mdo-HB-14-23_47Malus x domesticahaplotype
48Mdo-HB-14-23_48Malus x domesticahaplotype
49Mdo-HB-14-23_49Malus x domesticahaplotype
50Mdo-HB-14-23_50Malus x domesticahaplotype
51Mdo-HB-14-23_51Malus x domesticahaplotype
52Mdo-HB-14-23_52Malus x domesticahaplotype
53Mdo-HB-14-23_53Malus x domesticahaplotype
54Mdo-HB-14-23_54Malus x domesticahaplotype
55Mdo-HB-14-23_55Malus x domesticahaplotype
56Mdo-HB-14-23_56Malus x domesticahaplotype
57Mdo-HB-14-23_57Malus x domesticahaplotype
58Mdo-HB-14-23_58Malus x domesticahaplotype
59Mdo-HB-14-23_59Malus x domesticahaplotype
60Mdo-HB-14-23_60Malus x domesticahaplotype
61Mdo-HB-14-23_61Malus x domesticahaplotype
62Mdo-HB-14-23_62Malus x domesticahaplotype
63Mdo-HB-14-23_63Malus x domesticahaplotype
64Mdo-HB-14-23_64Malus x domesticahaplotype
65Mdo-HB-14-23_65Malus x domesticahaplotype
66Mdo-HB-14-23_66Malus x domesticahaplotype
67Mdo-HB-14-23_67Malus x domesticahaplotype
68Mdo-HB-14-23_68Malus x domesticahaplotype
69Mdo-HB-14-23_69Malus x domesticahaplotype
70Mdo-HB-14-23_70Malus x domesticahaplotype
71Mdo-HB-14-23_71Malus x domesticahaplotype
72Mdo-HB-14-23_72Malus x domesticahaplotype
73Mdo-HB-14-23_73Malus x domesticahaplotype
74Mdo-HB-14-23_74Malus x domesticahaplotype
75Mdo-HB-14-23_75Malus x domesticahaplotype
76Mdo-HB-14-23_76Malus x domesticahaplotype
77Mdo-HB-14-23_77Malus x domesticahaplotype
78Mdo-HB-14-23_78Malus x domesticahaplotype
79Mdo-HB-14-23_79Malus x domesticahaplotype
80Mdo-HB-14-23_80Malus x domesticahaplotype
81Mdo-HB-14-23_81Malus x domesticahaplotype
82Mdo-HB-14-23_82Malus x domesticahaplotype
83Mdo-HB-14-23_83Malus x domesticahaplotype
84Mdo-HB-14-23_84Malus x domesticahaplotype
85Mdo-HB-14-23_85Malus x domesticahaplotype
86Mdo-HB-14-23_86Malus x domesticahaplotype
87Mdo-HB-14-23_87Malus x domesticahaplotype
88Mdo-HB-14-23_88Malus x domesticahaplotype
89Mdo-HB-14-23_89Malus x domesticahaplotype
90Mdo-HB-14-23_90Malus x domesticahaplotype
91Mdo-HB-14-23_91Malus x domesticahaplotype
92Mdo-HB-14-23_92Malus x domesticahaplotype
93Mdo-HB-14-23_93Malus x domesticahaplotype
94Mdo-HB-14-23_94Malus x domesticahaplotype
95Mdo-HB-14-23_95Malus x domesticahaplotype
96Mdo-HB-14-23_96Malus x domesticahaplotype
97Mdo-HB-14-23_97Malus x domesticahaplotype
98Mdo-HB-14-23_98Malus x domesticahaplotype
99Mdo-HB-14-23_99Malus x domesticahaplotype
100Mdo-HB-14-23_100Malus x domesticahaplotype
101Mdo-HB-14-23_101Malus x domesticahaplotype
102Mdo-HB-14-23_102Malus x domesticahaplotype
103Mdo-HB-14-23_103Malus x domesticahaplotype
104Mdo-HB-14-23_104Malus x domesticahaplotype
105Mdo-HB-14-23_105Malus x domesticahaplotype
106Mdo-HB-14-23_106Malus x domesticahaplotype
107Mdo-HB-14-23_107Malus x domesticahaplotype
108Mdo-HB-14-23_108Malus x domesticahaplotype
109Mdo-HB-14-23_109Malus x domesticahaplotype
110Mdo-HB-14-23_110Malus x domesticahaplotype
111Mdo-HB-14-23_111Malus x domesticahaplotype
112Mdo-HB-14-23_112Malus x domesticahaplotype
113Mdo-HB-14-23_113Malus x domesticahaplotype
114Mdo-HB-14-23_114Malus x domesticahaplotype
115Mdo-HB-14-23_115Malus x domesticahaplotype
116Mdo-HB-14-23_116Malus x domesticahaplotype
117Mdo-HB-14-23_117Malus x domesticahaplotype
118Mdo-HB-14-23_118Malus x domesticahaplotype
119Mdo-HB-14-23_119Malus x domesticahaplotype
120Mdo-HB-14-23_120Malus x domesticahaplotype
121Mdo-HB-14-23_121Malus x domesticahaplotype
122Mdo-HB-14-23_122Malus x domesticahaplotype
123Mdo-HB-14-23_123Malus x domesticahaplotype
124Mdo-HB-14-23_124Malus x domesticahaplotype
125Mdo-HB-14-23_125Malus x domesticahaplotype
126Mdo-HB-14-23_126Malus x domesticahaplotype
127Mdo-HB-14-23_127Malus x domesticahaplotype
128Mdo-HB-14-23_128Malus x domesticahaplotype
129Mdo-HB-14-23_129Malus x domesticahaplotype
130Mdo-HB-14-23_130Malus x domesticahaplotype
131Mdo-HB-14-23_131Malus x domesticahaplotype
132Mdo-HB-14-23_132Malus x domesticahaplotype
133Mdo-HB-14-23_133Malus x domesticahaplotype
134Mdo-HB-14-23_134Malus x domesticahaplotype
135Mdo-HB-14-23_135Malus x domesticahaplotype
136Mdo-HB-14-23_136Malus x domesticahaplotype
137Mdo-HB-14-23_137Malus x domesticahaplotype
138Mdo-HB-14-23_138Malus x domesticahaplotype
139Mdo-HB-14-23_139Malus x domesticahaplotype
140Mdo-HB-14-23_140Malus x domesticahaplotype
141Mdo-HB-14-23_141Malus x domesticahaplotype
142Mdo-HB-14-23_142Malus x domesticahaplotype
143Mdo-HB-14-23_143Malus x domesticahaplotype
144Mdo-HB-14-23_144Malus x domesticahaplotype
145Mdo-HB-14-23_145Malus x domesticahaplotype
146Mdo-HB-14-23_146Malus x domesticahaplotype
147Mdo-HB-14-23_147Malus x domesticahaplotype
148Mdo-HB-14-23_148Malus x domesticahaplotype
149Mdo-HB-14-23_149Malus x domesticahaplotype
150Mdo-HB-14-23_150Malus x domesticahaplotype
151Mdo-HB-14-23_151Malus x domesticahaplotype
152Mdo-HB-14-23_152Malus x domesticahaplotype
153Mdo-HB-14-23_153Malus x domesticahaplotype
154Mdo-HB-14-23_154Malus x domesticahaplotype
155Mdo-HB-14-23_155Malus x domesticahaplotype
156Mdo-HB-14-23_156Malus x domesticahaplotype
157Mdo-HB-14-23_157Malus x domesticahaplotype
158Mdo-HB-14-23_158Malus x domesticahaplotype
159Mdo-HB-14-23_159Malus x domesticahaplotype
160Mdo-HB-14-23_160Malus x domesticahaplotype
161Mdo-HB-14-23_161Malus x domesticahaplotype
162Mdo-HB-14-23_162Malus x domesticahaplotype
163Mdo-HB-14-23_163Malus x domesticahaplotype
164Mdo-HB-14-23_164Malus x domesticahaplotype
165Mdo-HB-14-23_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
>GDsnp00062 ID=GDsnp00062|Name=GDsnp00062|organism=Malus x domestica|type=genetic_marker|length=201bp
TTCAATTACTTCAGTTTAAAAAAAAAAAAGAAAAAAAAAGGGAAATCCAA
AATCCCCCAAGGAAGAAAGAAAGCTGCCCACAGGGTACTTCATTTCTCCT
MGCCTTTTTTCAGAGTTGTCAACATGCGTCGGTTCAAGTACTAGGACTGG
TGACAATATCTGTGATCATCTTTATCAAGGAGCAGAGCCCGCCCAAAAAA
T
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map14N/A33.2GDsnp00062View
2Apple-FjxPL-F1-2013LG14N/A46.7GDsnp00062View
3Apple-RosBREED-3.9K-201914N/A44.03GDsnp00062View
4Apple-BB-F114N/A37.44GDsnp00062View
5Apple-NC-F114N/A51.65GDsnp00062View
6Apple-NCZFBB-consensus14N/A48.84GDsnp00062View
7Apple-ZF-F114N/A50.2GDsnp00062View
8Apple-MM-F114N/A31a475882478View
9Apple-X3259X3263-F114N/A48.75GD_SNP00062View
10Apple-GDxBr-F1-2013LG14N/A26.42GD_SNP00062View
11Apple-Honeycrisp_Consensus-F114N/A44.03GDsnp00062View
Alignments
Feature NameTypeLocationAnalysis
MDC007112.223 contig MDC007112.223:11313..11313. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr14 chromosome Chr14:23754278..23754278- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr14 chromosome Chr14:23754279..23754279. Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation