RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1, RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1 (genetic_marker) Malus x domestica

Marker Overview

Name

RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1

dbSNP ID

SNP Array ID

IRSC 9K SNP array for apple:	RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1
50K SNP array for apple:	AX-105195172

Type

SNP

SNP Alleles

T/C

5' Flanking Sequence

AAAACTTGAAGCTACTGTTTCCAGGCAAATTCAGG

3' Flanking Sequence

GCAGTTTCAAACTTCTGGCAAACAAGCTCTACAG

Species

Malus x domestica

Publication

[view all]

Contact

Nicola Harrison

Contact

Name

Details

Nicola Harrison

First name:	Nicola
Last name:	Harrison
Address:	East Malling Research, New Road, East Malling, Kent ME19 6BJ, UK
Email:	nicola.harrison@emr.ac.uk

Libraries


Library Name	Type
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
MDC015029.436	contig	MDC015029.436:5108..5108 .	Malus x domestica Whole Genome v1.0 Assembly & Annotation	n/a
Chr03	chromosome	Chr03:3158970..3158970 .	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	Harrison N, Harrison RJ, Barber-Perez N, Cascant-Lopez E, Cobo-Medina M, Lipska M, Conde-Ruíz R, Brain P, Gregory PJ, Fernández-Fernández F. A new three-locus model for rootstock-induced dwarfing in apple revealed by genetic mapping of root bark percentage. Journal of experimental botany. 2016 Jan 29; 67(6):1871-1881.
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	11	N/A	10.7	a475877530	View
2	Apple-M27xM116-2016	LG11	N/A	10.5	RBsnp0119	View
3	Pear-PH-CG-2017	LG3	N/A	129.06	RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1	View

Sequence

>RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1 ID=RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1; Name=RosBREEDSNP_SNP_CT_3832965_Lg3_00124_MAF20_1685142_exon1; organism=Malus x domestica; type=genetic_marker; length=70bp
AAAACTTGAAGCTACTGTTTCCAGGCAAATTCAGGYGCAGTTTCAAACTT
CTGGCAAACAAGCTCTACAG