RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1, RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1 (genetic_marker) Malus x domestica

Marker Overview

Name

RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1

dbSNP ID

SNP Array ID

480K SNP array for apple:	AX-105212231
IRSC 9K SNP array for apple:	RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1
50K SNP array for apple:	AX-105212231

Type

SNP

SNP Alleles

5' Flanking Sequence

GCTTGGATTCTGTTCAGGTTTGTTGGACCGGCTCT

3' Flanking Sequence

AATCTTTACCAGTTGGATGCACCTCCTCTCTCTC

Species

Malus x domestica

Publication

[view all]

Libraries


Library Name	Type
480K SNP array for apple	SNP_chip
IRSC 9K SNP array for apple	SNP_chip
50K SNP array for apple	SNP_chip

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
MDC006623.123	contig	MDC006623.123:22625..22625 .	Malus x domestica Whole Genome v1.0 Assembly & Annotation	n/a
Chr02	chromosome	Chr02:10777311..10777311 +	Malus x domestica GDDH13 v1.1 Whole Genome Assembly & Annotation	n/a

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
2012	Antanaviciute 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.
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.
2020	Rymenants 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

Map Positions


#	Map Name	Linkage Group	Bin	Position	Locus	MapViewer
1	Apple-MM-F1	2	N/A	30.2	c475877190	View
2	Apple-Honeycrisp_Consensus-F1	2	N/A	21.81	RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1	View

Sequence

>RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1 ID=RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1; Name=RosBREEDSNP_SNP_TG_11998839_Lg2_RosCOS2709_MAF50_1680670_exon1; organism=Malus x domestica; type=genetic_marker; length=75bp
GCTTGGATTCTGTTCAGGTTTGTTGGACCGGCTCT[G/T]AATCTTTACC
AGTTGGATGCACCTCCTCTCTCTCC