GDsnp01734, GDsnp01734 (genetic_marker) Malus x domestica

Marker Overview
NameGDsnp01734
Aliasss475882555
rs267615499
GD_SNP01734
ss475882555   
GD_SNP01734_F
GD_01734_L16_PA
dbSNP IDss475882555
SNP Array ID
480K SNP array for apple:GDsnp01734
IRSC 9K SNP array for apple:GDsnp01734
20K SNP array for apple:GDsnp01734
50K SNP array for apple:GDsnp01734
TypeSNP
SNP AllelesT/C
Probe 1GDsnp01734.probe: TTAGGCATTGAAATGGACAAAAGCTAAGAAGAAAAAGCAGAGAGACTCAG
5' Flanking SequenceCAGACAAGACTAAGAAATATCAGCACCTTAAAGGCCCTACTTAGATGCACTTAGGCATTG AAATGGACAAAAGCTAAGAAGAAAAAGCAGAGAGACTCAG
AAGAAGAAAAAGCAGA GAGACTCAG
3' Flanking SequenceACAGACTTGACAGCGCTCAATAAAGAAGCACACCTTCAATTTCTTCAAAACTGCCAGAGC TTCCTGTTGAGTAGAATCCACAGCAACTGGGATTATAATG
ACAGACTTGACAGCGC TCAATAAAG
SpeciesMalus x domestica
PolymorphismP_ GDsnp01734
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.
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
fruit textureqFT.XX-ch16.1Malus x domesticaQTL
fruit textureqFT.XX-ch16.1-S2Malus x domesticaQTL
fruit textureqFT.XX-ch16.2Malus x domesticaQTL


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

Feature NameUnique NameSpeciesType
GDsnp01734GDsnp01734Malus x domesticamarker_locus
GD_SNP01734GD_SNP01734Malus x domesticamarker_locus
GDsnp01734GDsnp01734-8.481Malus x domesticamarker_locus


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

Feature NameUnique NameSpeciesType
probeGDsnp01734.probeMalus x domesticaprobe


The following haplotype_block feature(s) contains this genetic_marker:

Feature NameUnique NameSpeciesType
Mdo-HB-16-7Mdo-HB-16-7Malus x domesticahaplotype_block
DM16HB7DM16HB7Malus x domesticahaplotype_block


The following haplotype feature(s) contains this genetic_marker:

Feature NameUnique NameSpeciesType
2Mdo-HB-16-7_2Malus x domesticahaplotype
3Mdo-HB-16-7_3Malus x domesticahaplotype
4Mdo-HB-16-7_4Malus x domesticahaplotype
5Mdo-HB-16-7_5Malus x domesticahaplotype
6Mdo-HB-16-7_6Malus x domesticahaplotype
7Mdo-HB-16-7_7Malus x domesticahaplotype
8Mdo-HB-16-7_8Malus x domesticahaplotype
9Mdo-HB-16-7_9Malus x domesticahaplotype
10Mdo-HB-16-7_10Malus x domesticahaplotype
11Mdo-HB-16-7_11Malus x domesticahaplotype
12Mdo-HB-16-7_12Malus x domesticahaplotype
13Mdo-HB-16-7_13Malus x domesticahaplotype
14Mdo-HB-16-7_14Malus x domesticahaplotype
15Mdo-HB-16-7_15Malus x domesticahaplotype
16Mdo-HB-16-7_16Malus x domesticahaplotype
17Mdo-HB-16-7_17Malus x domesticahaplotype
18Mdo-HB-16-7_18Malus x domesticahaplotype
19Mdo-HB-16-7_19Malus x domesticahaplotype
20Mdo-HB-16-7_20Malus x domesticahaplotype
21Mdo-HB-16-7_21Malus x domesticahaplotype
22Mdo-HB-16-7_22Malus x domesticahaplotype
23Mdo-HB-16-7_23Malus x domesticahaplotype
24Mdo-HB-16-7_24Malus x domesticahaplotype
25Mdo-HB-16-7_25Malus x domesticahaplotype
26Mdo-HB-16-7_26Malus x domesticahaplotype
27Mdo-HB-16-7_27Malus x domesticahaplotype
28Mdo-HB-16-7_28Malus x domesticahaplotype
29Mdo-HB-16-7_29Malus x domesticahaplotype
30Mdo-HB-16-7_30Malus x domesticahaplotype
31Mdo-HB-16-7_31Malus x domesticahaplotype
32Mdo-HB-16-7_32Malus x domesticahaplotype
33Mdo-HB-16-7_33Malus x domesticahaplotype
34Mdo-HB-16-7_34Malus x domesticahaplotype
35Mdo-HB-16-7_35Malus x domesticahaplotype
36Mdo-HB-16-7_36Malus x domesticahaplotype
37Mdo-HB-16-7_37Malus x domesticahaplotype
38Mdo-HB-16-7_38Malus x domesticahaplotype
39Mdo-HB-16-7_39Malus x domesticahaplotype
40Mdo-HB-16-7_40Malus x domesticahaplotype
41Mdo-HB-16-7_41Malus x domesticahaplotype
42Mdo-HB-16-7_42Malus x domesticahaplotype
43Mdo-HB-16-7_43Malus x domesticahaplotype
44Mdo-HB-16-7_44Malus x domesticahaplotype
45Mdo-HB-16-7_45Malus x domesticahaplotype
46Mdo-HB-16-7_46Malus x domesticahaplotype
47Mdo-HB-16-7_47Malus x domesticahaplotype
48Mdo-HB-16-7_48Malus x domesticahaplotype
49Mdo-HB-16-7_49Malus x domesticahaplotype
50Mdo-HB-16-7_50Malus x domesticahaplotype
51Mdo-HB-16-7_51Malus x domesticahaplotype
52Mdo-HB-16-7_52Malus x domesticahaplotype
53Mdo-HB-16-7_53Malus x domesticahaplotype
54Mdo-HB-16-7_54Malus x domesticahaplotype
55Mdo-HB-16-7_55Malus x domesticahaplotype
56Mdo-HB-16-7_56Malus x domesticahaplotype
57Mdo-HB-16-7_57Malus x domesticahaplotype
58Mdo-HB-16-7_58Malus x domesticahaplotype
59Mdo-HB-16-7_59Malus x domesticahaplotype
60Mdo-HB-16-7_60Malus x domesticahaplotype
61Mdo-HB-16-7_61Malus x domesticahaplotype
62Mdo-HB-16-7_62Malus x domesticahaplotype
63Mdo-HB-16-7_63Malus x domesticahaplotype
64Mdo-HB-16-7_64Malus x domesticahaplotype
65Mdo-HB-16-7_65Malus x domesticahaplotype
66Mdo-HB-16-7_66Malus x domesticahaplotype
67Mdo-HB-16-7_67Malus x domesticahaplotype
68Mdo-HB-16-7_68Malus x domesticahaplotype
69Mdo-HB-16-7_69Malus x domesticahaplotype
70Mdo-HB-16-7_70Malus x domesticahaplotype
71Mdo-HB-16-7_71Malus x domesticahaplotype
72Mdo-HB-16-7_72Malus x domesticahaplotype
73Mdo-HB-16-7_73Malus x domesticahaplotype
74Mdo-HB-16-7_74Malus x domesticahaplotype
75Mdo-HB-16-7_75Malus x domesticahaplotype
76Mdo-HB-16-7_76Malus x domesticahaplotype
77Mdo-HB-16-7_77Malus x domesticahaplotype
78Mdo-HB-16-7_78Malus x domesticahaplotype
79Mdo-HB-16-7_79Malus x domesticahaplotype
80Mdo-HB-16-7_80Malus x domesticahaplotype
81Mdo-HB-16-7_81Malus x domesticahaplotype
82Mdo-HB-16-7_82Malus x domesticahaplotype
83Mdo-HB-16-7_83Malus x domesticahaplotype
84Mdo-HB-16-7_84Malus x domesticahaplotype
85Mdo-HB-16-7_85Malus x domesticahaplotype
86Mdo-HB-16-7_86Malus x domesticahaplotype
87Mdo-HB-16-7_87Malus x domesticahaplotype
88Mdo-HB-16-7_88Malus x domesticahaplotype
89Mdo-HB-16-7_89Malus x domesticahaplotype
90Mdo-HB-16-7_90Malus x domesticahaplotype
91Mdo-HB-16-7_91Malus x domesticahaplotype
92Mdo-HB-16-7_92Malus x domesticahaplotype
93Mdo-HB-16-7_93Malus x domesticahaplotype
94Mdo-HB-16-7_94Malus x domesticahaplotype
95Mdo-HB-16-7_95Malus x domesticahaplotype
96Mdo-HB-16-7_96Malus x domesticahaplotype
97Mdo-HB-16-7_97Malus x domesticahaplotype
98Mdo-HB-16-7_98Malus x domesticahaplotype
99Mdo-HB-16-7_99Malus x domesticahaplotype
100Mdo-HB-16-7_100Malus x domesticahaplotype
101Mdo-HB-16-7_101Malus x domesticahaplotype
102Mdo-HB-16-7_102Malus x domesticahaplotype
103Mdo-HB-16-7_103Malus x domesticahaplotype
104Mdo-HB-16-7_104Malus x domesticahaplotype
105Mdo-HB-16-7_105Malus x domesticahaplotype
106Mdo-HB-16-7_106Malus x domesticahaplotype
107Mdo-HB-16-7_107Malus x domesticahaplotype
108Mdo-HB-16-7_108Malus x domesticahaplotype
109Mdo-HB-16-7_109Malus x domesticahaplotype
110Mdo-HB-16-7_110Malus x domesticahaplotype
111Mdo-HB-16-7_111Malus x domesticahaplotype
112Mdo-HB-16-7_112Malus x domesticahaplotype
113Mdo-HB-16-7_113Malus x domesticahaplotype
114Mdo-HB-16-7_114Malus x domesticahaplotype
115Mdo-HB-16-7_115Malus x domesticahaplotype
116Mdo-HB-16-7_116Malus x domesticahaplotype
117Mdo-HB-16-7_117Malus x domesticahaplotype
118Mdo-HB-16-7_118Malus x domesticahaplotype
119Mdo-HB-16-7_119Malus x domesticahaplotype
120Mdo-HB-16-7_120Malus x domesticahaplotype
121Mdo-HB-16-7_121Malus x domesticahaplotype
122Mdo-HB-16-7_122Malus x domesticahaplotype
123Mdo-HB-16-7_123Malus x domesticahaplotype
124Mdo-HB-16-7_124Malus x domesticahaplotype
125Mdo-HB-16-7_125Malus x domesticahaplotype
126Mdo-HB-16-7_126Malus x domesticahaplotype
127Mdo-HB-16-7_127Malus x domesticahaplotype
128Mdo-HB-16-7_128Malus x domesticahaplotype
129Mdo-HB-16-7_129Malus x domesticahaplotype
130Mdo-HB-16-7_130Malus x domesticahaplotype
131Mdo-HB-16-7_131Malus x domesticahaplotype
132Mdo-HB-16-7_132Malus x domesticahaplotype
133Mdo-HB-16-7_133Malus x domesticahaplotype
134Mdo-HB-16-7_134Malus x domesticahaplotype
135Mdo-HB-16-7_135Malus x domesticahaplotype
136Mdo-HB-16-7_136Malus x domesticahaplotype
137Mdo-HB-16-7_137Malus x domesticahaplotype
138Mdo-HB-16-7_138Malus x domesticahaplotype
139Mdo-HB-16-7_139Malus x domesticahaplotype
140Mdo-HB-16-7_140Malus x domesticahaplotype
141Mdo-HB-16-7_141Malus x domesticahaplotype
142Mdo-HB-16-7_142Malus x domesticahaplotype
143Mdo-HB-16-7_143Malus x domesticahaplotype
144Mdo-HB-16-7_144Malus x domesticahaplotype
145Mdo-HB-16-7_145Malus x domesticahaplotype
146Mdo-HB-16-7_146Malus x domesticahaplotype
147Mdo-HB-16-7_147Malus x domesticahaplotype
148Mdo-HB-16-7_148Malus x domesticahaplotype
149Mdo-HB-16-7_149Malus x domesticahaplotype
150Mdo-HB-16-7_150Malus x domesticahaplotype
151Mdo-HB-16-7_151Malus x domesticahaplotype
152Mdo-HB-16-7_152Malus x domesticahaplotype
153Mdo-HB-16-7_153Malus x domesticahaplotype
154Mdo-HB-16-7_154Malus x domesticahaplotype
155Mdo-HB-16-7_155Malus x domesticahaplotype
156Mdo-HB-16-7_156Malus x domesticahaplotype
157Mdo-HB-16-7_157Malus x domesticahaplotype
158Mdo-HB-16-7_158Malus x domesticahaplotype
159Mdo-HB-16-7_159Malus x domesticahaplotype
160Mdo-HB-16-7_160Malus x domesticahaplotype
161Mdo-HB-16-7_161Malus x domesticahaplotype
162Mdo-HB-16-7_162Malus x domesticahaplotype
163Mdo-HB-16-7_163Malus x domesticahaplotype
164Mdo-HB-16-7_164Malus x domesticahaplotype
165Mdo-HB-16-7_165Malus x domesticahaplotype
3DM16HB7_3Malus x domesticahaplotype
4DM16HB7_4Malus x domesticahaplotype
5DM16HB7_5Malus x domesticahaplotype
6DM16HB7_6Malus x domesticahaplotype
7DM16HB7_7Malus x domesticahaplotype
8DM16HB7_8Malus x domesticahaplotype
9DM16HB7_9Malus x domesticahaplotype
10DM16HB7_10Malus 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
>GDsnp01734 ID=GDsnp01734|Name=GDsnp01734|organism=Malus x domestica|type=genetic_marker|length=201bp
CAGACAAGACTAAGAAATATCAGCACCTTAAAGGCCCTACTTAGATGCAC
TTAGGCATTGAAATGGACAAAAGCTAAGAAGAAAAAGCAGAGAGACTCAG
YACAGACTTGACAGCGCTCAATAAAGAAGCACACCTTCAATTTCTTCAAA
ACTGCCAGAGCTTCCTGTTGAGTAGAATCCACAGCAACTGGGATTATAAT
G
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Apple Integrated map16N/A5.6GDsnp01734View
2Apple-RGTxGD-F1-2015GD_16N/A0.87GDsnp01734View
3Apple-B-F1-2014B16N/A49.1GDsnp01734View
4Apple-FjxPL-F1-2013LG16N/A23.66GDsnp01734View
5Apple-RosBREED-3.9K-201916N/A8.48GDsnp01734View
6Apple-BB-F116N/A12.43GDsnp01734View
7Apple-NC-F116N/A16.32GDsnp01734View
8Apple-NCZFBB-consensus16N/A17.18GDsnp01734View
9Apple-ZF-F116N/A10.84GDsnp01734View
10Apple-X3259X3263-F116N/A9.17GD_SNP01734View
11Apple-X5210X8402-F1-X5210LG16N/A3.3GD_SNP01734View
12Apple-Honeycrisp_Consensus-F116N/A8.48GDsnp01734View
Alignments
Feature NameTypeLocationAnalysis
MDC019042.203 contig MDC019042.203:15702..15702. Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr16 chromosome Chr16:3489107..3489107+ Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr16 chromosome Chr16:3489057..3489157- Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation
Chr16 chromosome Chr16:3489108..3489108. Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation