Table 5

Summary of taurine haplotypes at aberrant sites for each amplicon determined from Hereford sequence and the species sharing the same haplotype (*).

Gene_Amplicon

(Taurine Haplotype)

Chromosome

Gaur

Mithan

Banteng

Bison

Yak


NRIP1_e1.2

(G)

bta01

*

*

*

*

NRIP1_e1.3

(T)

bta01

*

*

*

*

PIT1_e1

(T)

bta01

*

*

*

*

PIT1_e3

(T)

bta01

*

*

*

PIT1_e5

(C)

bta01

*

*

*

*

PIT1_e6

(ACAGTGAACTCCTAG)

bta01

*

ITGBP5_e3

(GG)

bta01

*

ITGBP5_e5

(ATAGAC)

bta01

*

ITGBP5_e6

(CGTG)

bta01

*

*

ITGBP5_e10

(CG)

bta01

*

*

5HT1F_e1

(T)

bta01

*

*

IGFBP2_e1

(AT)

bta02

*

IGFBP5_e2

(CGG)

bta02

*

IGFBP5_e3

(ACGGCC)

bta02

*

HFABP_e2

(GTTC)

bta02

*

HFABP_e3

(TGTA)

bta02

*

LACS3_e1

(T)

bta02

*

LACS3_e3

(T)

bta02

*

LACS3_e4

(C)

bta02

*

*

LACS3_e6

(CA)

bta02

*

5HT6_e1.2

(TGTGCA)

bta02

*

GMEB1_e1

(AC)

bta02

*

GMEB1_e3

(CCGG)

bta02

*

*

GMEB1_e4

(A)

bta02

*

GMEB1_e5

(AC)

bta02

*

GMEB1_e6

(G)

bta02

*

*

GMEB1_e7

(TA)

bta02

*

*

*

GMEB1_e8

(CT)

bta02

*

*

*

EGF_e1

(TTA)

bta06

*

ERa_e3

(A)

bta09

*

*

ERa_e4

(C)

bta09

*

ERa_e5

(AC)

bta09

*

ERa_e6

(T)

bta09

*

*

ERa_e7

(TGA)

bta09

*

PABPC1_e2

(AC)

bta14

*

PABPC1_e3

(TTTGCG)

bta14

*

PABPC1_e5

(GG)

bta14

*

PABPC1_e9

(CCCACGCACTAGACAGCG)

bta14

*

MFGE8_e2

(CCCTT)

bta21

*

MFGE8_e3

(ATC)

bta21

*

MFGE8_e5

(TCCA)

bta21

*

*


*Number of exons represented as e(n) where e = exon and n = number, therefore, PIT1_e1 is exon 1 of PIT1. Exons that extend over the largest sequencing read, which is typically 800 bp are represented as e(n.j) where j equals order of read from 5-prime to 3-prime. Therefore NRIP_e1.1 and NRIP_e1.2 represent two subsequent reads of the l

The number of aberrant alleles making each haplotype are given in brackets as the (taurine haplotype). Table displays haplotype blocks shared with Hereford and 5 members of the Bovinae for exons within the each gene and for genes on the same chromosome.

MacEachern et al. BMC Genomics 2009 10:177   doi:10.1186/1471-2164-10-177

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