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Table 2 General information about the pig taste receptor genes used in this study

From: Characterization of the porcine nutrient and taste receptor gene repertoire in domestic and wild populations across the globe

    

Total region

 

Gene region

SNP distribution by class and functional consequences

Gene group

Genes

exon*

Chr.

Coordinates (bp)

SNPs

Coordinates (bp)

% miss

SNPs

Intergenic

Exon

Intron

5’UTR

3’UTR

Stop lost

Stop gained

Sy

Ns

Bitter

Tas2r20

1

5

63894140-63915054

310

63904140-63905054

10.98

13

297

13

-

-

-

-

-

5

8

 

Tas2r9

1

5

63971739-63982674

229

63976739-63977674

9.10

6

223

6

-

-

-

-

-

0

6

 

Tas2r10

1

5

63958146-63971725

266

63965446-63966375

12.12

9

257

9

-

-

-

-

-

2

7

 

Tas2r42

1

5

63857091-63878041

257

63867091-63868041

10.06

17

240

17

-

-

-

-

-

9

8

 

Tas2r16

1

18

25873452-25894354

474

25883452-25884354

10.25

16

458

16

-

-

-

-

-

8

8

 

Tas2r38

1

18

8347518-8368525

79

8357518-8358525

16.13

21

58

21

-

-

-

-

-

11

10

 

Tas2r39

1

18

7348848-7369855

310

7358848-7359855

10.08

28

282

28

-

-

-

-

1

8

19

 

Tas2r41

1

18

7008806-7029729

88

7018806-7019729

20.90

18

70

18

-

-

-

-

-

6

12

 

Tas2r60

1

18

7035247-7056597

110

7045247-7046597

11.59

24

86

14

10

-

-

-

-

10

4

 

Tas2r7

1

5

63982692-63996080

254

63985142-63986080

8.82

10

244

10

-

-

-

-

-

5

5

Aminoacid

Tas1r3 a

6

6

58109541-58116535

34

58111612-58115907

57.76

17

17

14

3

1

4

-

-

8

1

 

mGluR4

10

7

34829241-34938071

2344

34839241-34928071

40.00

1976

368

36

1940

8

-

-

-

26

2

 

GPRC6A

3

1

50121244-50146085

253

50131244-50136085

11.74

41

212

6

35

-

-

-

-

3

3

 

mGluR1

7

1

21466379-21824964

5671

21476379-21814964

16.07

5421

250

20

5401

3

1

-

-

15

1

 

CaSR a

6

13

147897932-147940283

345

147907932-147935070

75.62

138

208

22

116

-

-

-

-

20

2

 

Tas1r1

7

6

62349877-62363714

117

62350603-62363204

31.62

112

5

13

99

-

-

1

-

7

5

Fatty acids

GPR40

1

6

40335081-40343065

89

40339566-40340468

50.96

8

81

8

-

-

-

-

-

4

4

 

GPR43

1

6

40272039-40293031

243

40282039-40283031

40.38

11

232

11

-

-

-

-

-

10

1

 

GPR41

1

6

40323922-40335070

172

40333922-40334902

43.46

11

161

11

-

-

-

-

-

8

3

 

GPR120

3

14

114733575-114769008

516

114743575-114765158

18.73

360

156

1

359

-

-

-

-

1

0

 

GPR84

2

5

20404644-20416116

74

20410225-20411195

31.99

2

72

2

-

-

-

-

-

1

1

 

Total

  

778077†

12235

480139†

 

8259

3977

296

7963

12

5

1

1

167

110

  1. Details included are the chromosome, start and end position, total SNPs and their distribution by genomic region and functional consequence, and missing data (%miss). This analysis was performed in 77 pigs (the two Sumatran wild boars are not included).
  2. aGenes excluded because of high missing rate, Sy = Synonymous and Ns = Nonsynonymous sites. *Number of exons per genes.. † Total length in base pairs for all genes (bp).
  3. The % of missing data, for every position, was computed as the number of non-callable genotypes, either because of low quality or low depth (a minimum depth of 5× was required), divided by total number of samples (77). Total missing rate was the average across positions.
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BMC Genomics

ISSN: 1471-2164

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