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Table 2 Genomic regions associated with coefficients of reaction norm models for post-weaning weight gain in Nellore cattle, and annotated genes within those regions

From: Unraveling genetic sensitivity of beef cattle to environmental variation under tropical conditions

Region

%Vara

Chrb

Window startb (bp)

Window endb (bp)

Gene stable IDc

Gene symbolc

b0

b1

b0s

b1s1

b1s2

1

  

0.55

0.55

 

1

84,867,382

85,267,382

2

    

0.58

3

35,940,081

36,344,427

ENSBTAG00000014530

NTNG1

3

    

0.78

3

96,120,576

96,520,576

ENSBTAG00000014482

FAF1

ENSBTAG00000045402

RF00322

ENSBTAG00000010414

DMRTA2

4

   

0.55

 

3

114,849,177

115,249,177

ENSBTAG00000013869

SH3BP4

5

0.56

 

1.52

1.61

 

4

8,329,351

8,741,255

ENSBTAG00000002107

FZD1

ENSBTAG00000027319

 

6

1.00

0.88

1.25

1.14

 

5

84,442,697

84,878,158

ENSBTAG00000039906

 

ENSBTAG00000046108

 

ENSBTAG00000000749

LMNTD1

7

    

0.74

7

22,728,136

23,164,748

ENSBTAG00000009034

AP3D1

ENSBTAG00000025448

IZUMO4

ENSBTAG00000014526

MOB3A

ENSBTAG00000018049

MKNK2

ENSBTAG00000025445

 

ENSBTAG00000008609

SEPT8

ENSBTAG00000031246

CCNI2

ENSBTAG00000025477

KIF3A

ENSBTAG00000015957

IL4

ENSBTAG00000015953

IL13

ENSBTAG00000011252

RAD50

8

  

0.76

0.75

 

7

95,572,442

95,972,442

9

    

0.82

8

107,325,318

107,747,332

ENSBTAG00000004010

PAPPA

ENSBTAG00000047511

 

ENSBTAG00000025667

 

ENSBTAG00000017155

TRIM32

10

    

0.53

9

58,226,166

58,643,182

11

    

0.50

10

7,290,264

7,690,264

ENSBTAG00000017507

SV2C

ENSBTAG00000000897

IQGAP2

12

0.79

0.63

   

11

22,788,685

23,203,999

ENSBTAG00000013861

SLC8A1

ENSBTAG00000037153

RF00001

13

0.60

0.63

0.68

0.55

 

11

56,219,017

56,652,372

ENSBTAG00000007135

REG3G

ENSBTAG00000011314

REG3A

14

0.56

0.64

0.77

0.74

 

14

19,482,365

19,901,806

ENSBTAG00000044730

RF00026

ENSBTAG00000019892

HAS2

15

    

0.50

14

72,964,805

73,364,805

16

    

0.83

16

64,552,728

64,958,425

ENSBTAG00000046243

ZNF648

ENSBTAG00000027426

 

ENSBTAG00000013631

GLUL

17

 

0.50

   

17

7,729,955

8,129,955

ENSBTAG00000008098

DCLK2

18

  

0.51

  

17

11,993,902

12,393,902

ENSBTAG00000034522

SLC10A7

ENSBTAG00000048020

 

ENSBTAG00000014060

LSM6

19

0.54

    

18

59,112,039

59,512,039

ENSBTAG00000045571

 

ENSBTAG00000037440

 

ENSBTAG00000047712

 

ENSBTAG00000030454

 

ENSBTAG00000011052

 

20

0.84

0.71

   

20

65,401,804

65,809,687

ENSBTAG00000009401

MTRR

ENSBTAG00000009400

ENSBTAG00000019210

FASTKD3

ADCY2

21

    

0.63

27

11,730,389

12,130,389

ENSBTAG00000047427

RF00100

22

    

0.52

27

32,310,351

32,710,351

ENSBTAG00000033381

 

ENSBTAG00000013943

ZNF703

23

    

0.62

29

12,876,785

13,278,418

ENSBTAG00000033731

PRCP

ENSBTAG00000006812

FAM181B

ENSBTAG00000044832

 
  1. aPercentage of genetic variance (%Var) explained by the leading segment (within region) of five adjacent SNPs, for each coefficient. b0: intercept of a heteroscedastic linear reaction norm model (RNM_hete); b1: slope of RNM_hete; b0s: intercept of a heteroscedastic spline linear–linear reaction norm model (RNM_l-l); b1s1: slope of segment 1 of RNM_l-l; b1s2: slope of segment 2 of RNM_l-l. Only  %Var ≥ 0.5% are presented
  2. bChromosome (Chr) and bp position (bpp) according to the UMD3.1 assembly
  3. cRetrieved from the BioMart Ensembl genes 93 database; genes with human orthologs, used for enrichment analyses, are presented in italics