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Table 5 Overrepresented Gene Ontology (GO) categories in the hypermethylated genes in PA64S (S)

From: Genome-wide analysis of DNA methylation in photoperiod- and thermo-sensitive male sterile rice Peiai 64S

GO term

Ontology a

Element

Ontology description

Number in input list

Number in BG/Ref

p-value

GO:0005750

C

Down2k_ Down

mitochondrial respiratory chain complex III

4

14

2.74e-05

GO:0005746

C

Down2k_ Down

mitochondrial respiratory chain

3

22

0.00104

GO:0005743

C

Down2k_ Down

mitochondrial inner membrane

5

78

0.00223

GO:0016742

F

3’-UTR_ Down

hydroxymethyl-, formyl- and related transferase activity

4

4

1.61e-14

GO:0016741

F

3’-UTR_ Down

transferase activity, transferring one-carbon groups

4

84

3.12e-08

GO:0030528

F

Intron_ Down

transcription regulator activity

4

178

1.09e-05

GO:0045153

F

Down2k_ Down

electron transporter, transferring electrons within CoQH2-cytochrome c reductase complex activity

4

13

4.58e-05

GO:0009853

P

3’-UTR_ Down

photorespiration

4

4

3.65e-13

GO:0046653

P

3’-UTR_ Down

tetrahydrofolate metabolic process

4

4

3.65e-13

GO:0006760

P

3’-UTR_ Down

folic acid and derivative metabolic process

4

8

2.56e-11

GO:0042558

P

3’-UTR_ Down

pteridine and derivative metabolic process

4

11

1.20e-10

GO:0043094

P

3’-UTR_ Down

cellular metabolic compound salvage

4

19

1.41e-09

GO:0006732

P

3’-UTR_ Down

coenzyme metabolic process

4

63

2.17e-07

GO:0009259

P

3’-UTR_ Down

ribonucleotide metabolic process

4

81

6.08e-07

GO:0051186

P

3’-UTR_ Down

cofactor metabolic process

4

102

1.55e-06

GO:0009117

P

3’-UTR_ Down

nucleotide metabolic process

4

111

2.19e-06

GO:0006725

P

3’-UTR_ Down

cellular aromatic compound metabolic process

4

129

4.02e-06

GO:0032787

P

3’-UTR_ Down

monocarboxylic acid metabolic process

4

142

5.94e-06

GO:0046483

P

3’-UTR_ Down

heterocycle metabolic process

4

189

1.88e-05

GO:0006122

P

Down2k_ Down

mitochondrial electron transport, ubiquinol to cytochrome c

4

6

2.35e-06

GO:0042775

P

Down2k_ Down

mitochondrial ATP synthesis coupled electron transport

4

18

0.00045

GO:0006119

P

Down2k_ Down

oxidative phosphorylation

4

28

0.00289

GO:0042773

P

Down2k_ Down

ATP synthesis coupled electron transport

4

28

0.00289

  1. a, C: cellular component; F, molecular function; P, biological process.
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BMC Genomics

ISSN: 1471-2164

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