Table 4.
Percent frequency of cloned cDNA, distribution and classification of the transcribed CojaIIB allele as five distinct Coja haplotypes
| HT number | Locus | Allele | PM2 alleles | Nt. Acc, No. | Nucleotide similarity to HT1 (%) | % frequency of cDNA clones per individual quail (% frequency of cDNA clones per haplotype) | |||||
| quail individual number | |||||||||||
| 302* | 311 | 312 | 321 | 322 | 323 | ||||||
| HT1 | Coja-DAB1 | Coja-DAB1*01 | AB181861 | 100 | 46.9** (46.9)*** | - | 17.1 (37.1) | 5.9 (19.0) | - | - | |
| Coja-DBB1 | Coja-DBB1*01 | Coja-DBB1*01 | AB181862 | 100 | 35.9 (35.9) | - | 22.4 (48.6) | 16.2 (52.4) | - | - | |
| Coja-DCB1 | Coja-DCB1*01 | AB181863 | 100 | 6.3 (6.3) | - | 1.3 (2.9) | 2.9 (9.5) | - | - | ||
| Coja-DDB1 | - | - | - | - | - | - | - | - | - | ||
| Coja-DEB1 | Coja-DEB1*01 | AB181865 | 100 | 4.7 (4.7) | - | 2.6 (5.6) | - | - | - | ||
| Coja-DFB1 | Coja-DFB1*01 | AB181866 | 100 | - | - | 1.3 (2.9) | 1.5 (4.8) | - | - | ||
| Coja-DGB1 | Coja-DGB1*01 | AB181868 | 100.0 | 6.3 (6.3) | - | - | 4.4 (14.3) | - | - | ||
| Coja-DGB1 | Coja-DGB1*02 | AB181869 | 98.9 (DGB1) | - | - | 1.3 (2.9) | - | - | - | ||
| HT2 | CojaII-13 | CojaII-13*01 | Coja-DBB1*02 | AB181874 | 76.3 (DCB1) ~ 87.4 (DAB1) | - | 62.9 (100) | 53.9 (100) | - | - | 67.2 (100) |
| HT3 | CojaII-16 | CojaII-16*01 | Coja-DBB1*03 | AB264281 | 78.9 (DCB1) ~ 85.2 (DBB1) | - | 12.9(34.8) | - | - | - | - |
| CojaII-17 | CojaII-17*01 | AB264282 | 77.5 (DCB1) ~ 83.3 (DGB1) | - | 24.2 (65.2) | - | - | - | - | ||
| HT4 | CojaII-02 | CojaII-02*01 | Coja-DBB1*04 | AB181871 | 78.1 (DCB1) ~ 88.9 (DBB1) | - | - | - | 13.2 (19.1) | 14.5 (29.4) | - |
| CojaII-01 | CojaII-01*01 | AB181870 | 78.9 (DCB1) ~ 87.8 (DBB1) | - | - | - | 36.8 (53.2) | 21.7 (44.1) | - | ||
| CojaII-04 | CojaII-04*01 | AB181872 | 77.8 (DCB1) ~ 84.4 (DBB1) | - | - | - | 19.1 (27.7) | 13.0 (26.5) | - | ||
| HT5 | CojaII-14 | CojaII-14*01 | Coja-DBB1*05 | AB181876 | 77.4 (DCB1) ~ 87.4 (DAB1) | - | - | - | - | 47.8 (94.3) | 28.1 (85.7) |
| Coja-DFB1 | Coja-DFB1*02 | AB181867 | 99.3 (DFB1) | - | - | - | - | 2.9 (5.7) | 4.7 (14.3) | ||
| cDNA sub-clone | 64 | 62 | 76 | 68 | 69 | 64 | |||||
| Presumptive HT | 1/1 | 2/3 | 1/2 | 1/4 | 4/5 | 2/5 | |||||
Bold letter indicates sub-clone frequency over 30%. (-) means not transcribed. Coja-DFB1*02 was categorized to "HT5" because this allele sequence was observed in only HT5.