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Table 1 Annotation and expression of chicken W chromosome genes.

From: RNA sequencing reveals sexually dimorphic gene expression before gonadal differentiation in chicken and allows comprehensive annotation of the W-chromosome

Gene Description Genomic Location Expression (FPKM) Female % ID with paralog dN/dS
    Blastoderms E4.5 Gonads DNA Protein  
ATP5A1-W ATP synthase subunit alpha ChrW
W_random
101 155 89.3 95.4 0.280
BTF3-W Transcription factor BTF3-like Autosome 86.3 141 90.9 94.4 0.160
C18ORF25-W Uncharacterized protein C18ORF25 ChrW
W_random ChrUn
0.874 3.93 90.3 83.7 0.434
CHD1-W Chromodomain helicase DNA binding protein ChrW
W_random autosomal
6.81 9.35 86.8 88.1 0.126
FAF Female Associated Factor ChrW
W_random
15 21.2    
GOLPH3-W Golgi phosphoprotein 3-like ChrUn 2.82 24.9 92.7 95.6 0.080
HINT-W Histidine triad nucleotide binding protein ChrW
W_random
1780 1170 41.0 48.5 0.608
HNRPK-W Heterogeneous nuclear ribonucleoprotein K ChrUn 103 100 94.2 99.3 0.040
KCMF1-W E3 ubiquitin-protein ligase KCMF1-like ChrW
W_random
10.1 21.6 92.0 93.2 0.181
MIER3-W Mesoderm induction early response 3 ChrUn 7.42 19.9 92.9 92.5 0.265
NEDD4-like-W Neural precursor cell expressed developmentally downregulated 4-like ChrUn 0.048 1.92 82.4 83.0 0.209
NIPBL-W/SCC2-W Nipped B/sister chromatid cohesion 2 ChrW
W_random
7.78 7.39 89.9 90.0 0.148
RASA1-W Ras GTPase-activating protein 1-like ChrW
W_random ChrUn
2.77 10.5 81.4 89.4 0.132
RPL17-W Ribosomal protein 17 ChrUn 368 332 96.7 100.0 0.000
SMAD2-W Mothers against decapentaplegic homolog 2-like ChrW
W_random
19.2 30 92.4 96.4 0.024
SMAD7-W TGF-beta signal pathway antagonist Smad7 ChrUn 4.47 4.95 93.8 93.6 0.208
SPIN-W Spindlin ChrW
W_random
1.8 10.6 95.7 98.5 0.045
ST8SIA3-W Sia-alpha-2,3-Gal-beta-1,4-GlcNAc-R: alpha 2,8-sialyltransferase-like ChrW
W_random
4.31 3.16 94.7 95.7 0.105
SUB1-W Activated RNA polymerase II transcriptional coactivator p15-like ChrUn 11.6 26.6 94.5 96.0 0.097
TXN-like1-W thioredoxin ChrUn 7.16 19.6 94.5 95.2 0.144
UBAP2-W Ubiquitin associated protein 2 ChrW
W_random
16.3 11.9 92.1 89.6 0.263
UBE2R2-W Ubiquitin-conjugating enzyme E2R 2 ChrW
W_random
5.38 17.4 94.4 100.0 0.000
VCP-like-W Valosin containing protein ChrUn 64.4 128 95.5 99.9 0.003
ZFR-W Zinc finger RNA-binding protein Autosome ChrUn 4.47 7.51 93.8 94.1 0.172
ZNF532-W Zinc finger protein 532-like autosome 3.52 5.59 94.0 94.0 0.181
ZSWIM6-W Zinc finger SWIM domain-containing protein 6-like ChrW
W_random autosome ChrUn
0.54 4.73 91.7 92.4 0.172
Mir-7b-W MicroRNA 7b (in intron of HNRPK-W) ChrUn unknown unknown 93.6   
SNORD58-W 1 Small nucleolar RNA SNORD58 (in intron of RPL17-W) ChrUn unknown unknown 97.0   
SNORD58-W 2 Small nucleolar RNA SNORD58 (in intron of RPL17-W) ChrUn unknown unknown 89.7   
SNORD121A-W 1 Small nucleolar RNA SNORD121A (in intron of UBAP2-W) ChrW
W_random
unknown unknown 90.6   
SNORD121A-W 2 Small nucleolar RNA SNORD121A (in intron of UBAP2-W) ChrW
W_random
unknown unknown 90.4   
  1. A list of the chicken W genes. Genomic Location gives the chromosome/s where the gene sequences can be found in the chicken reference genome (galGal4). Expression shows the average expression levels as an FPKM value (fragments per kilobase of exon per million fragments mapped) for females from the blastoderm and gonad (E4.5) tissue. The % ID gives the percentage identity of the W gene's open read frame against its Z gametologue for both DNA and amino acid sequences. dN/dS is the ratio of synonomous to non-synonomous substitutions, also across the open read frame of the W genes and their Z gametologues.