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Table 1 Haplotype determination for the distal and proximal AF QTL on chromosome 5.

From: Complex trait subtypes identification using transcriptome profiling reveals an interaction between two QTL affecting adiposity in chicken

Animal ID

Subgroup

Proximal AF QTL haplotype

Distal AF QTL haplotype

Both AF QTL haplotypes

L1

lean2

q

q

q-q

L2

lean2

Q

q

Q-q

L3

lean1

q

Q

q-Q

L4

lean1

Q

q

Q-q

L5

lean1

Q

q

Q-q

L6

lean1

q

x

X

L7

lean2

Q

x

X

L8

lean1

q

Q

q-Q

L9

mixed

q

q

q-q

L10

lean1

x

q

X

L11

lean1

x

q

X

L12

lean1

q

q

q-q

L13

fat2

x

Q

X

L14

lean1

Q

q

Q-q

L15

lean1

x

Q

X

L16

lean2

q

x

X

L17

lean2

Q

q

Q-q

L18

mixed

Q

Q

Q-Q

L19

lean2

Q

q

Q-q

L20

fat2

q

q

q-q

I1

mixed

x

Q

X

I2

fat2

x

Q

X

I3

mixed

q

q

q-q

I4

mixed

Q

Q

Q-Q

I5

mixed

Q

q

Q-q

F1

fat1

Q

Q

Q-Q

F2

mixed

Q

Q

Q-Q

F3

fat2

Q

Q

Q-Q

F4

fat2

Q

Q

Q-Q

F5

fat1

Q

x

X

F6

fat1

q

q

q-q

F7

fat1

Q

Q

Q-Q

F8

mixed

x

Q

X

F9

fat1

Q

x

X

F10

fat1

q

q

q-q

F11

fat2

x

q

X

F12

fat2

Q

Q

Q-Q

F13

mixed

q

q

q-q

F14

fat1

x

Q

X

F15

fat2

x

Q

X

F16

lean2

q

q

q-q

F17

fat1

x

Q

X

F18

fat2

Q

Q

Q-Q

F19

fat2

Q

Q

Q-Q

F20

mixed

q

Q

q-Q

  

34 animals

40 animals

29 animals

  1. Animal labels F1 to F20 indicate the 20 fattest chickens, L1 to L20 the 20 leanest chickens and I1 to I5 the 5 intermediate chickens.
  2. The two letters indicate the Q or q haplotype inherited from the sire, with a probability > 99% for the QTL at 84 cM (first column) or the QTL at 168 cM (second column); x indicates a probability < 99%. The probability of inheriting the paternal Q versus q haplotype was calculated by QTLMap software only on the basis of marker information in the region of interest.