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Table 1 Summary description of genes in ~2.38 Mb region on chromosome Z

From: Genome-wide association study revealed genomic regions related to white/red earlobe color trait in the Rhode Island Red chickens

Gene

Full Name

Location (bp)a

Length (bp)a

Number (SNP)b

Functions

PAM

Peptidylglycine alpha-amidating monooxygenase

50,043,929 - 50,172,820

128,892

7

Catalyze neuroendocrine peptides to active alpha-amidated products [17, 30], type 2 diabetes [13].

SLCO4C1

Solute carrier organic anion transporter family member 4C1

50,256,470–50,283,287

26,818

2

Transport estrone 3-sulfate [31].

ST8SIA4

ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4

50,646,216–50,699,691

53,476

0

Modulator of the adhesive properties of neural cell adhesion molecule [16].

LOC107052343

NA

50,802,139–50,808,822

6,684

0

NA

FAM174A

Family with sequence similarity 174 member A

50,808,437–50,822,236

13,800

0

NA

CHD1

Chromodomain helicase DNA binding protein 1

51,274,317–51,322,737

48,421

0

Disease related [12, 32, 33, 34].

RGMB

Repulsive guidance molecule family member b

51,334,306–51,349,990

15,685

0

Angiogenesis [35], breast cancer [14].

RIOK2

RIO kinase 2

51,538,065–51,550,090

12,026

0

Mitotic progression [36], cytoplasmic maturation [18].

LIX1

Limb and CNS expressed 1

51,552,825–51,581,108

28,284

0

Fat signaling, marker for cerebral structures [19, 37].

LNPEP

Leucyl/cystinyl aminopeptidase

51,598,066–51,651,403

53,338

13

Vasopressin clearance and serum sodium regulation [38], associated with psoriasis [39].

LOC107052344

NA

51,667,644–51,675,321

7,678

1

NA

SHB

Src homology 2 domain containing adaptor protein B

51,704,167–51,777,551

73,385

14

Regulates cell motility [40, 41].

LOC107052345

NA

51,759,503–51,766,981

7,479

4

NA

RNF38

Ring finger protein 38

51,958,739–51,993,024

34,286

9

Disease related [15, 42].

LOC101752070

NA

51,999,295–52,003,026

3,732

0

NA

TRIM14

Tripartite motif containing 14

52,003,922–52,011,357

7,436

3

A mediator in the immune response against viral infection [43].

NANS

N-acetylneuraminic acid synthase

52,013,130-52,022,024

8,895

3

Change expression in response to androgen [44].

CLTA

Clathrin light chain A

52,040,355–52,055,158

14,804

2

Main structural component of the lattice-type cytoplasmic face of coated pits and vesicles [22, 23].

GNE

Glucosamine (UDP-N-acetyl)-2-epimerase

52,058,958–52,096,177

37,220

10

GNE myopathy [45], regulator of sialic acid synthesis [46].

LOC107052346

NA

52,149,755–52,175,567

25,813

9

NA

LOC100857660

NA

52,178,755–52,205,231

26,477

6

NA

CPLX1

Complexin 1

52,264,659–52,368,798

104,140

18

Synaptic vesicle exocytosis, bind syntaxin, part of the SNAP receptor [21, 47, 48].

LOC101752249

NA

52,471,803–52,483,455

11,653

2

NA

  1. NA not available
  2. a Source: Reference Gallus_gallus-5.0 primary assembly (NCBI)
  3. b The number of genome significant SNPs located in gene