Chromosomal Location of HCA1 and HCA2, Hybrid Chlorosis Genes in Rice

Table 3

Primer sequences designed and used for mapping HCA1 and HCA2 loci.

Marker name	Kind of DNA marker		Primer sequences (5′–3′)	Location on IRGSP pseudomolecules Build05
				Chromosome	Position		Source
					From	To
RM25969	SSR	F	TAAATTTGGTTGTCTACGCATGG	11	364229	364418	[23]
		R	CTGCTCCAGATTAGGAGCCAG				redesigned in this study
E30794	Indel	F	TCTGCCTATGTATTTGTGCGTTAAT	11	679545	679744	RGP
		R	AAGTAACACAACGAAGGAGCAAC				redesigned in this study
S1284	Indel	F	ACATTCAACTGATCACAGCC	11	2186184	2186392	RGP
		R	AGCTCTGCACTAGGATGATG
RM5599	SSR	F	AATTTTGTGCTGTTGTTGAA	11	3810354	3810494	[28]
		R	CTCACAATATCACCATCCAC
S21074	Indel	F	TGCTATAGGTGGTGGTATGC	11	5588871	5589049	RGP
		R	TTTCAAGCTGACGAACGATG
RM202	SSR	F	CCAGCAAGCATGTCAATGTA	11	9050541	9050718	[29]
		R	CAGATTGGAGATGAAGTCCTCC
RM5731	SSR	F	CCTCCACCCTAAGCTTCTCC	11	10005222	10005423	[28]
		R	CGATGCACCTAGCGCATC
RM27404	SSR	F	GCAGCGATTGGAGGTGGAA	12	204766	204863	[23]
		R	GACCGTGCCATCTTGTCCAG				redesigned in this study
RM27421	SSR	F	TCAACTCCATTCTACTCTCTACCC	12	468463	468538	[23]
		R	GCTGCTGGTACTTCGTAGAGG
KGS1739	Indel	F	AGAGACGCAGGAGCTGCTTA	12	1999528	1999818	[14, 30]
		R	CATGACCCTTCTATGGCAATTAT
RM6296	SSR	F	CCCACGTTTCTCTTGTCCTC	12	3200580	3200734	[28]
		R	TCTTGCCTCGCTAGGGTTAG
RM27695	SSR	F	CTATAAAGAGTCCGAGGGGTATTGT	12	4828865	4829000	[23]
		R	GGGAGAGGATGTGAATGAAGG				redesigned in this study
RZ869	Indel	F	TTTTGGTATTTGCTGCATGG	12	7739507	7739753	RGP
		R	TATCAATCACCCCCAACCTC