Table 5 Protein family classification of alternative genes in cereal plants

pfam00069

Pkinase

205

228

55

74

Protein kinase domain

pfam00076

RRM_1

112

61

32

43

RNA recognition motif

pfam07714

Pkinase_Tyr

88

79

12

25

Protein tyrosine kinase

pfam13639

zf-RING_2

53

28

8

15

Ring finger domain

pfam00067

p450

45

56

4

37

Cytochrome P450

pfam00481

PP2C

45

25

11

11

Protein phosphatase 2C

pfam00249

Myb_DNA-binding

44

14

7

22

Myb-like DNA-binding domain

pfam00179

UQ_con

43

17

10

7

Ubiquitin-conjugating enzyme

pfam00010

HLH

41

5

1

7

Helix-loop-helix DNA-binding domain

pfam00071

Ras

38

20

11

7

Ras family

pfam00141

peroxidase

37

30

11

31

Peroxidase

pfam00153

Mito_carr

35

24

7

14

Mitochondrial carrier protein

pfam01559

Zein

35

0

0

0

Zein seed storage protein

pfam01490

Aa_trans

33

12

1

7

Transmembrane amino acid transporter protein

pfam02365

NAM

33

33

8

14

No apical meristem (NAM) protein

pfam00125

Histone

31

9

3

5

Core histone H2A/H2B/H3/H4

pfam01370

Epimerase

31

26

8

22

NAD dependent epimerase/dehydratase family

pfam00083

Sugar_tr

30

22

7

10

Sugar (and other) transporter

pfam00847

AP2

30

9

3

9

AP2 domain

pfam00106

adh_short

29

25

10

15

short chain dehydrogenase

pfam00657

Lipase_GDSL

29

5

1

16

GDSL-like Lipase/Acylhydrolase

pfam00085

Thioredoxin

28

14

6

11

Thioredoxin

pfam00226

DnaJ

28

18

9

9

DnaJ domain

pfam03151

TPT

27

9

2

6

Triose-phosphate Transporter family

pfam00004

AAA

26

18

6

14

ATPase family associated with various cellular

pfam00270

DEAD

24

21

5

8

DEAD/DEAH box helicase

pfam00504

Chloroa_b-bind

24

19

11

20

Chlorophyll A-B binding protein

pfam02309

AUX_IAA

24

13

5

5

AUX/IAA family

pfam00149

Metallophos

23

9

3

13

Calcineurin-like phosphoesterase

pfam00134

Cyclin_N

22

9

2

4

Cyclin

pfam00450

Peptidase_S10

21

18

6

18

Serine carboxypeptidase

pfam03106

WRKY

21

22

7

7

WRKY DNA -binding domain

pfam13041

PPR_2

21

30

1

12

PPR repeat family

Total

6900

4939

1362

2890