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Table 1 Features of the coding sequences of black grouse MHC-B genes and sequence comparisons with homologous genes in chicken, turkey, quail and pheasant

From: Sequencing of the core MHC region of black grouse (Tetrao tetrix) and comparative genomics of the galliform MHC

Gene

Position

Strand

Gene length (bp)

Exons

Exons verified*

Average coverage per nucleotide

Comparison with other galliformMHCs

dN/dS

Chicken

Turkey

Quail

Pheasant

Nucleotide identity

Amino Acid Identity

Nucleotide identity

Amino Acid Identity

Nucleotide identity

Amino Acid Identity

Nucleotide identity

Amino Acid Identity

BTN1(partial)

112-4076

+

786

14

1

34.6

         

BTN2

7150-10374

+

921

8

0

0

0.797

0.738

0.913

0.894

/

/

/

/

0.470

BG1

12132-16240

-

804

14

1

1.0

0.881

0.826

0.851

0.800

0.832

0.771

/

/

0.335

Blec2

18188-20712

-

825

6

1

5.8

0.698

0.595

0.706

0.593

0.705

0.607

/

/

0.433

Blec1

23007-24547

+

471

5

1

1.0

0.934

0.917

0.949

0.942

0.927

0.894

0.958

0.947

0.230

BLB1**

25386-26738

-

792

6

3

18.1

0.920

0.863

0.932

0.886

0.884

0.826

0.934

0.890

0.805

TAPBP

27591-31078

+

1296

8

7

21.5

0.920

0.882

0.951

0.935

0.891

0.856

0.942

0.919

0.301

BLB2**

32031-33413

+

792

6

5

10.6

0.933

0.897

0.928

0.875

0.890

0.818

0.943

0.902

0.924

BRD2

34798-40437

-

2340

12

12

8.7

0.957

0.996

0.976

0.996

0.934

0.995

0.971

0.997

0.011

DMA

44248-46392

+

789

4

3

12.2

0.913

0.889

0.937

0.924

0.856

0.817

0.943

0.928

0.375

DMB1

46628-48880

+

1020

8

2

1.0

0.864

0.794

0.851

0.793

0.847

0.774

0.923

0.876

0.496

DMB2

49322-52121

+

777

6

5

23.0

0.921

0.911

0.951

0.938

0.859

0.822

0.952

0.955

0.235

BF1***

52919-54907

+

1056

8

5

1.3

0.858

0.769

0.879

0.789

0.835

0.734

0857

0.770

0.733

TAP2

56357-59553

-

2106

9

6

2.2

0.927

0.934

0.952

0.950

0.897

0.893

0.940

0.932

0.186

TAP1

60134-64265

+

1755

11

2

1.0

0.932

0.938

0.957

0.966

0.905

0.915

0.954

0.949

0.195

BF2***

65364-67372

-

1077

8

6

16.1

0.860

0.749

0.888

0.802

0.826

0.737

0.870

0.767

0.767

C4

68440-82244

+

4875

38

4

1.4

0.911

0.940

0.933

0.958

/

/

0.963

0.963

0.207

CenpA

82653-84175

+

429

4

0

0

0.967

0.993

/

/

/

/

0.968

0.979

0.037

CYP21(partial)

84680-88358

+

1326

10

2

1.0

         
  1. * Expression verified by 454 transcriptome sequencing, **BLB = MHC Class IIB genes, *** BF = MHC Class I genes.
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BMC Genomics

ISSN: 1471-2164

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