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
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

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

Wang et al.

Wang et al. BMC Genomics 2012 13:553   doi:10.1186/1471-2164-13-553

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