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Table 1 Comparison of G + C content and nucleotide substitution frequency in three regions among T. muenninki, mouse, and rat

From: Initiation of recombination suppression and PAR formation during the early stages of neo-sex chromosome differentiation in the Okinawa spiny rat, Tokudaia muenninki

Species

Site

Genome category

No. of genes

No. of bases

GC content

No. of substitutions

A/T → G/C (%)

G/C → A/T

A/T → C/G

C/G → A/T

A/T → T/A

G/C → C/G

T.muenninki

neo-sex peritelomeric

ORF

50

22,288

69.5

1,452

51.9

25.1

9.8

2.8

3.6

6.9

M.musculus

chr. 11E1-E2

   

66.8

1,231

34.0

42.9

7.6

5.5

2.8

7.1

R.norvegicus

chr. 10q32.3

   

66.0

1,439

31.6

46.8

4.5

6.5

3.1

7.4

T.muenninki

neo-sex middle

ORF

29

15,596

64.7

655

35.9

42.3

6.7

5.2

4.4

5.5

M.musculus

chr. 11B5

   

65.3

791

36.9

37.3

11.0

4.7

4.2

5.9

R.norvegicus

chr. 10q24

   

64.2

957

32.0

45.4

7.1

6.3

3.3

6.0

T.muenninki

neo-sex pericentromeric

ORF

37

16,788

58.5

690

27.4

52.2

5.2

6.7

3.5

5.1

M.musculus

chr. 16A1-B3, chr. 17A3.3

   

59.6

839

37.1

40.6

7.5

5.1

3.9

5.7

R.norvegicus

chr. 10q11-12

   

59.4

1,150

36.3

41.1

7.0

5.7

4.9

5.0

T.muenninki

neo-sex peritelomeric

UTR + intron

51

342,340

52.4

22,385

40.3

24.9

13.4

6.3

7.3

7.8

M.musculus

chr. 11E1-E2

   

50.9

18,488

32.0

35.1

10.9

7.6

6.9

7.6

R.norvegicus

chr. 10q32.3

   

50.6

23,100

31.8

36.5

8.9

8.1

6.8

7.8

T.muenninki

neo-sex middle

UTR + intron

29

346,940

48.2

16,768

32.0

36.0

10.3

7.1

7.9

6.7

M.musculus

chr. 11B5

   

48.4

17,444

32.7

34.4

11.5

6.9

7.6

6.8

R.norvegicus

chr. 10q24

   

48.3

23,707

32.6

35.3

9.9

7.2

7.7

7.3

T.muenninki

neo-sex pericentromeric

UTR + intron

40

576,147

45.5

26,909

28.7

40.9

8.6

8.1

7.8

6.1

M.musculus

chr. 16A1-B3, chr. 17A3.3

   

46.2

29,346

32.2

34.8

11.3

7.2

8.0

6.4

R.norvegicus

chr. 10q11-12

   

46.4

46,550

34.4

33.1

10.5

7.2

7.9

6.9