Table 2

Features of different PCS classes in human

group

number of PCSs

conser-vation score

length (bp)

G+C content

PCSs with ≥ 1 CpG

CpGobs/CpGexp of PCSs with ≥ 1 CpG

(TpG+CpA)/(2·CpG) ratio of PCSs with ≥ 1 CpG


overlapping with CpG islands


imprinted

321

392

69

65.93%

94.38%

0.79

0.73


maternal

170

417

75

66.48%

95.29%

0.85a

0.59


paternal

151

379

62

65.44%

92.72%

0.74*

0.83*


autosomal

55931

385

58

67.48%

95.30%

0.83

0.68


intronic


imprinted

1120

320*

40

38.89%****

32.05%***

0.51****

2.50*****


maternal

719

320

41

39.39%****

33.38%***

0.52**

2.50*****


paternal

401

320

40

38.10%**

29.68%

0.50**

2.50****


autosomal

365258

329

40

36.54%

25.42%

0.42

3.83


intergenic


imprinted

1787

325****

40****

39.04%*****

33.97%***

0.47****

2.83*****


maternal

832

320****

39***

35.78%c

25.00%b

0.53****a

3.00****


paternal

955

329***

41

42.31%***

41.78%***

0.45*

2.50*****


autosomal

588309

338

43

36.36%

27.32%

0.42

4.00


unique


imprinted

2357

325****

39****

38.46%*****

29.87%***

0.45****

3.00*****


maternal

1304

320*****

39****

36.72%c

25.61%b

0.46****

3.00*****


paternal

1053

329***

40

40.74%*****

35.14%***

0.44

3.00*****


autosomal

844703

338

42

36.36%

25.49%

0.39

4.33


* p < 0.01, ** p < 0.005, *** p < 0.001, **** p < 1e-4, ***** p < 1e-10 for comparison with autosomal PCSs (χ2 test for fractions of PCSs, Wilcoxon test for all other features). If maternally and paternally expressed genes differ significantly from each other, this is indicated as following: a p < 0.05, b p < 0.005, c p < 1e-4

Unique PCSs do not overlap with protein encoding exons, repetitive elements, or CpG islands. The shown absolute numbers of PCSs are not normalized by the lengths of the analyzed genomic segments. Hence they give information about the amount of available data but not about frequencies or coverage of PCSs in the listed genomic segments.

Hutter et al. BMC Genomics 2010 11:649   doi:10.1186/1471-2164-11-649

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