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Table 1 Selected candidate genes with their functions and details of EcoTILLING fragments discovered

From: EcoTILLING by sequencing reveals polymorphisms in genes encoding starch synthases that are associated with low glycemic response in rice

S. No

Gene

NCBI Genbank

Gene size (kb)

Gene area of highest PSSM Score difference

PSSM Score difference

No of amplicons used to cover EcoTILLING fragments

No of exons covered

No of splice sites covered

Function

Consequence of disruption

mRNA ID

Genomic ID

1.

GBSS I

AB425323.1

NC_008399.2

3.479

1679 to 2977

2782

1

8

7

Amylose biosynthesis

Down or up regulation of amylose

2.

SS I

GQ150950.1

NC_008399.2

6.815

4550 to 5848

1708

1

8

7

Amylopectin synthesis

Branching pattern of amylopectin is likely to be changed, no effect on amylose

3.

SS IIa

GQ150968.1

NC_008399.2

4.419

3037 to 4335

3346

2

3

1

Amylopectin synthesis

Branching pattern of amylopectin is likely to be changed, Increase in amylose

4.

SS IIIa

GQ151010.1

AK061604

11.083

8887 to10185

3203

2

7

5

Amylopectin synthesis

Branching pattern of amylopectin is likely to be changed, moderate increase in AC, no effect on RS

5.

SBE Ia

GQ150912.1

NC_008399.2

4.745

923 to 2221

2384

1

5

4

Amylopectin synthesis

Preferentially branches amylose type polyglucans. And it has capacity for branching less branched α-glucans. Also modifies amylopectin architecture and grain morphology.

6.

SBE IIb

D16201.1

NC_008395.2

10.899

3517 to 4815

1711

2

13

11

Amylopectin synthesis

Increased amylose and RS concentration and alter amylopectin architecture such as degree of branching and branching pattern