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Table 3 Variable nucleotide and amino acid sites in Rag1

From: Base composition, selection, and phylogenetic significance of indels in the recombination activating gene-1 in vertebrates

  

N

Bp

Variable nucleotides

Variable nucleotide 1st pos

Variable nucleotide 2nd pos

Variable nucleotide 3rd pos

N aa

Variable aa

Actinopterygii

F

110

3246

46

38

27

74

1082

43

 

3'

110

1453-3246

56

47

31

90

598

50

Amphibia

F

113

3252

60

50

38

92

1084

57

 

5'

7

1-1461

62

51

45

89

487

60

 

3'

113

1462-3252

58

50

32

94

597

55

Aves

F

119

3141

48

39

23

86

1047

39

 

5'

119

1-1353

59

48

41

87

451

58

 

3'

119

1354-3141

39

23

10

85

596

25

Chondrichthyes

F

30

3336

19

13

9

36

1112

16

 

3'

30

1360-3336

32

22

15

54

659

26

Crocodylia

F

13

2947

5

5

1

9

983

5

 

5'

13

1-1257

6

5

2

10

419

8

 

3'

13

1258-2947

4

4

1

8

564

4

Lepidosauria

F

84

2928

63

53

41

97

976

58

 

5'

80

1-1263

75

67

61

98

421

74

 

3'

84

1264-2928

54

42

25

96

555

45

Mammalia

F

89

3165

52

38

27

92

1055

42

 

5'

37

1-1377

61

50

42

92

459

61

 

3'

89

1378-3165

45

28

15

93

596

28

Testudines

F

24

2793

26

16

10

53

931

20

 

5'

24

1-1212

31

23

16

52

404

30

 

3'

24

1212-2793

23

10

5

53

527

11

  1. The variability in nucleotides and amino acids is presented in percentages (rounded to the higher integer) for the 582 sequences dataset. "N" indicates the number of sequences included. "Bp" indicates the total number of base pairs or the base pairs range for the analyzed fragment after the within group alignment. "N aa" indicates the number of amino acids in the analyzed fragment after the within group alignment. Note that for Actinopterygii and Chondrichthyes only the 3'-end of the gene is indicated. "F", "5"' and "3"' indicate the full gene and the 5' and 3'-ends of the gene, respectively. See Methods for any additional information on the gene divisions and data available for each gene division.