Structure and expression of GSL1 and GSL2 genes encoding gibberellin stimulated-like proteins in diploid and highly heterozygous tetraploid potato reveals their highly conserved and essential status

Table 1 The incidence of indels and SNPs in various regions of the GSL1 (A) and GSL2 (B) genes

Region	Nucleotide position	Size	Number of indels	Number of SNPs	SNP frequency (nucleotides/SNP)
(A)
Promoter	−1960 to −1501	460	6	18	25.6
	−1500 to −1001	500	9	14	35.7
	−1000 to −501	500	9	18	27.8
	−500 to −1	500	10	13	38.5
5'UTR	1 to 33	33	0	1	33.0
Exon 1	34 to 115	82	0	2	41.0
Intron	116 to 619	504	16	24	21.0
Exon 2	620 to 804	185	0	2	92.5
3'UTR	805 to 1009	205	3	5	41.0
(B)
Promoter	−590 to −1	590	6	12	49.2
5'UTR	1 to 38	38	1	0	-
Exon 1	39 to 125	87	0	1	87.0
Intron 1	126 to 374	249	2	7	35.6
Exon 2	375 to 420	46	0	1	46.0
Intron 2	421 to 583	163	5	5	32.6
Exon 3	584 to 765	182	0	4	45.5
3'UTR	766 to 1067	302	7	6	50.3

The next generation sequence data from four tetraploid potato genotypes (Karaka, Summer Delight, 1021/1, VTⁿ62-33-3), plus the diploid RH [33], were aligned with the reference potato genome of DM [33]. SNP output is from polySNP tool with stringent calling (https://github.com/mfiers/polysnp).

ISSN: 1471-2164