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Table 4 Annotation of virtual SAGE-tags for yeast by the HGA method

From: Accurate and unambiguous tag-to-gene mapping in serial analysis of gene expression

 

All TAGs

Unique TAGs

 

Frequency

Percentage

Frequency

Percentage

Classes

Platinum (Pt)

28,948

37.68

28,948

43.40

Gold (Au)

2,075

2.70

815

1.22

Silver (Ag)

363

0.47

143

0.21

Aluminum (Al)

4,139

5.39

1,580

2.37

Copper (Cu)

31,844

41.45

31,844

47.74

Iron (Fe)

6,417

8.35

2,037

3.05

Silicon (Si)

3,040

3.96

1,336

2.00

Confidences

High

62,780

81.72

62,780

94.12

Undefined

11,082

14.42

3,923

5.88

Low

2,964

3.86

0

0.00

Transcript context

UTR-5'

1,669

4.70

1,481

4.70

ORF (CDS)

28,645

80.63

25,049

79.56

UTR-3'

5,211

14.67

4,956

15.74

Intergenic and transcripts

Intergenic

41,301

53.76

35,217

52.80

Transcript opposite

30,208

39.32

27,407

41.09

Transcript full

35,172

45.78

31,143

46.69

Partial transcript

353

0.46

343

0.51

Total transcripts

35,525

46.24

31,486

47.20

Introns

Intron

380

1.07

212

0.67

Non-intron

35,145

98.93

31,274

99.33

Poly(A) next

Poly(A) next

1,606

4.52

1,541

4.89

Non-poly(A) next

33,919

95.48

29,945

95.11

Non coding RNAs

Non-mRNAs

367

1.03

203

0.64

Splicing

Spliced

13

0.02

12

0.02

Position within the transcript

Position 1

6,415

18.06

6,156

17.48

Position 2

5,733

16.14

5,423

15.40

Position 3

4,943

13.91

4,306

12.23

Position 4

4,054

11.41

3,542

10.06

Position 5

3,217

9.06

2,787

7.91

Position 6

2,537

7.14

2,186

6.21

Position 7

1,965

5.53

1,672

4.75

Position 8

1,516

4.27

1,267

3.60

Position 9

1,163

3.27

972

2.76

Position 10

894

2.52

754

2.14

Total

Total

76,826

100.00

66,703

100.00