Identification of accession-specific variants and development of KASP markers for assessing the genetic makeup of Brassica rapa seeds

Table 3 Accession-specific single nucleotide polymorphisms (SNPs) that were identified in eight representative B. rapa accessions

Category	Accession ID	Chromosome	Position	REF	ALT	CNU_11479	CNU_11480	26,021	26,022	28,059	28,061	CNU_11411	CNU_11412
Non-pekinensis	CNU_11479	A03	21,060,850	A	C	CC	AA	AA	AA	AA	AA	AA	AA
	CNU_11479	A06	3,079,806	A	G	GG	AA	AA	AA	AA	AA	AA	AA
	CNU_11480	A02	15,635,917	C	T	CC	TT	CC	CC	CC	CC	CC	CC
	CNU_11480	A03	10,121,108	G	A	GG	AA	GG	GG	GG	GG	GG	GG
Chinese germplasm	26,021	A02	18,369,509	C	T	CC	CC	TT	CC	CC	CC	CC	CC
	26,021	A06	6,118,599	G	A	GG	GG	AA	GG	GG	GG	GG	GG
	26,022	A01	6,548,614	A	T	AA	AA	AA	TT	AA	AA	AA	AA
	26,022	A03	3,737,651	A	C	AA	AA	AA	CC	AA	AA	AA	AA
Japanese breeding	28,059	A07	21,078,330	G	T	GG	GG	GG	GG	TT	GG	GG	GG
	28,059	A07	23,181,319	G	T	GG	GG	GG	GG	TT	GG	GG	GG
	28,061	A03	22,285,257	G	A	GG	GG	GG	GG	GG	AA	GG	GG
	28,061	A10	450,622	A	C	AA	AA	AA	AA	AA	CC	AA	AA
Korean breeding	CNU_11411	A07	20,012,970	G	A	GG	GG	GG	GG	GG	GG	AA	GG
	CNU_11411	A09	37,233,481	C	T	CC	CC	CC	CC	CC	CC	TT	CC
	CNU_11412	A07	21,781,162	C	G	CC	CC	CC	CC	CC	CC	CC	GG
	CNU_11412	A09	42,427,036	C	G	CC	CC	CC	CC	CC	CC	CC	GG

REF Reference genome, ALT allele of reference genome and genetic variants, CNU Chungnam National University, a provider of 35 accessions used in this study

ISSN: 1471-2164