Table 4 Genomic windows associated with fat deposition traits that harbor positional candidate genes.

From: Integration of genome wide association studies and whole genome sequencing provides novel insights into fat deposition in chicken

GGA (Mb)

PCGa

Ensembl gene IDb

Number of SNPsc

SNP density (SNPs/kb)d

1 (52)

MB

ENSGALG00000012541

221

60

1 (53)e

CRY1 g

ENSGALG00000012638

675

20

1 (54)e

CHST11 f

ENSGALG00000030607

2593

17

1 (168)

HTR2A

ENSGALG00000016992

535

21

RB1

ENSGALG00000016997

1673

20

1 (170)

FOXO1

ENSGALG00000017034

835

13

1 (175)

SLC7A1

ENSGALG00000017085

559

30

2 (30)

IL6

ENSGALG00000010915

161

60

7 (36)e

NR4A2 f

ENSGALG00000012538

1961

27

GPD2 f

ENSGALG00000012543

628

15

15 (9)

PLA2G1B

ENSGALG00000020989

145

88

SIRT4

ENSGALG00000007244

314

71

15 (10)

SELM

ENSGALG00000025972

166

82

20 (12)

DOK5

ENSGALG00000007786

663

19

28 (0)

SLC1A6

ENSGALG00000000558

554

25

ANGPTL4

ENSGALG00000000619

305

43

RAB11B

ENSGALG00000000613

384

30

28 (3)

STK11

ENSGALG00000040008

738

22

GDF3

ENSGALG00000003161

103

49

TM6SF2

ENSGALG00000029015

214

65

SLC25A42

ENSGALG00000002621

239

35

SLC5A5

ENSGALG00000041932

244

54

SLC39A3

ENSGALG00000020582

170

116

28 (4)e

PIK3R2

ENSGALG00000003428

275

15

INSR f

ENSGALG00000040758

578

17

SLC35E1

ENSGALG00000003794

103

22

  1. aPositional candidate genes.
  2. bEnsembl gene ID based on Galgal5 (Ensembl Genes 90 Database).
  3. cNumber of SNPs annotated on the PCG.
  4. dSNP density in the respective PCG.
  5. eIndicates that this genomic window overlaps with a selection signature region21.
  6. fIndicates that the positional candidate gene was annotated within a selection signature region.
  7. gIndicates that this positional candidate gene was located 1.5 kb from a selection signature region.
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