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Table 1 Characteristics of the MPSS and SBS libraries of developing rice seeds

From: Deep sequencing reveals the complex and coordinated transcriptional regulation of genes related to grain quality in rice cultivars

Classification

Cypress (PSC)

LaGrue (PSL)

Ilpumbyeo (PSI)

YR15965 (PSY)

Nipponbare (PSN)

 

MPSS

SBS

MPSS

SBS

MPSS

SBS

MPSS

SBS

MPSS

SBS

Number of reads

1,266,713

3,718,464

1,082,099

2,326,663

1,201,584

3,293,394

1,190,250

2,634,791

1,207,914

4,110,241

Distinct signatures

12,660

103,741

18,297

165,129

17,783

83,071

12,379

77,023

16,499

104,531

Significant signatures

10,099

30,571

14,253

36,335

13,971

25,915

10,402

23,302

13,116

34,165

Non-significant signatures

2,561

73,170

4,044

128,794

3,812

57,156

1,977

53,721

3,383

70,366

1-100 TPM

10,705

101,187

16,280

161,929

15,605

80,069

10,449

74,564

14,486

101,894

101-1,000 TPM

1,783

2,312

1,827

2,896

1,985

2,704

1,741

2,226

1,815

2,389

1,001-10,000 TPM

157

228

177

290

183

284

176

218

186

234

>10,000 TPM

15

14

13

14

10

14

13

15

12

14

Total signatures matched to the Nipponbare genome

10,940

22,872

15,813

17,521

15,276

20,032

10,678

18,313

14,378

28,118

Significant signatures matched to the Nipponbare genome

8,855 (80.9%)

21,582 (94.3%)

12,534 (79.2%)

15,514 (88.5%)

12,313 (80.6%)

19,000 (94.8%)

9,118 (85.3%)

17,477 (95.4%)

11,622 (80.8%)

25,777 (91.6%)

Significant signatures specifically identified by either MPSS or SBS

2,359

22,831

3,869

25,951

5,219

17,163

3,216

16,116

3,669

24,718

Significant signatures identified by both MPSS and SBS

7,740 (77% overlap)

10,384 (73% overlap)

8,752 (62% overlap)

7,186 (70% overlap)

9,447 (72% overlap)