RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3, RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3 (genetic_marker) Malus x domestica

Marker Overview

Name

RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3

dbSNP ID

SNP Array ID

480K SNP array for apple:	AX-115181836
IRSC 9K SNP array for apple:	RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3
20K SNP array for apple:	RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3

Type

SNP

SNP Alleles

T/C

Probe 1

RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3.probe: AAGAATTATAACATACCTCTGCTATACCTCTTGATAATCGAAAATCCACA

5' Flanking Sequence

GTTACCAAATAAAGAATTATAACATACCTCTGCTATACCTCTTGATAATCGAAAATCCAC A

3' Flanking Sequence

TTATTGACTTGGTCTTTGAAAGTCTAGCAACAGAGAACTTTTTATTTCTCTTGGACTCCT C

Species

Malus x domestica

Publication

[view all]

Contact

Michela Troggio

Contact

Name

Details

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

Libraries


Library Name	Type
20K SNP array for apple	SNP_chip
480K SNP array for apple	SNP_chip
IRSC 9K SNP array for apple	SNP_chip

Analyses

This genetic_marker is derived from or has results from the following analyses


Analysis Name	Date Performed
RosBREED SNP development	2011-01-01

Publications


Year	Publication
2014	Bianco 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.
2016	Bianco 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.

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	Apple_HCGA_F1	15	N/A	79.18	SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3	View
2	Apple_HC64_F1	15	N/A	32.44	SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3	View
3	Apple_HCMO_F1	15	N/A	14.11	SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3	View
4	Apple_HGMM_Consenus	15	N/A	97.12	SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3	View
5	Apple-Honeycrisp_Consensus-F1	15	N/A	73.93	RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3	View

Sequence

>RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3 ID=RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3; Name=RosBREEDSNP_SNP_CT_28693156_Lg15_02592_MAF50_MDP0000161194_exon3; organism=Malus x domestica; type=genetic_marker; length=75bp
CCTCTGCTATACCTCTTGATAATCGAAAATCCACA[C/T]TTATTGACTT
GGTCTTTGAAAGTCTAGCAACAGAG

Alignments

Feature Name	Type	Location	Analysis
MDC001234.235	contig	MDC001234.235:2668..2668.	Malus x domestica Whole Genome v1.0 Assembly & Annotation
Chr15	chromosome	Chr15:27075565..27075565+	Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation