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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