Table 4 Expression of eye field transcription factor genes and lens protein coding gene. The table shows that homologous genes of the molluscs to eye field transcriptional factors (EFTFs) of the vertebrates and S-crystallin of the cephalopods. NP contig ID and PS contig ID represent isoforms matched to each gene. FPKM represents the fragment per kilobases per million reads that shows relative abundance of gene expression. Left three column represents the presence of homologs in closely related species

From: Loss of the six3/6 controlling pathways might have resulted in pinhole-eye evolution in Nautilus

Gene Name HIX ID

NP contig ID

NP FPKM

PS contig ID

PS FPKM

Aplysia EST

Limpet EST

Pearl oyster genome

Pax6 HIX0009529.18

comp4923_c0_seq1

15.4

comp7037_c0_seq1

2.6

-

FC563366

pfu_aug1.0_8418.1_67856.t1

 

comp4923_c0_seq2

4.9

     
 

comp4923_c0_seq3

2.6

comp7037_c0_seq2

22.9

   
 

comp5935_c0_seq1

23.1

comp7037_c0_seq3

2.7

   
 

comp21022_c1_seq1

2.3

comp7580_c0_seq1

29.0

   
 

comp21022_c1_seq2

2.8

comp100382_c0_seq1

1.5

   

rx1/Rax1 HIX0202674.1

comp265385_c0_seq1

1.8

-

-

EB227521

-

-

Tbx3/ET HIX0011028.16

comp182732_c0_seq1

2.6

-

-

EB253303

FC583587

pfu_aug1.0_294.1_36469.t1

 

comp256561_c0_seq1

2.4

     

tailless/Nr2e1 HIX0006116.14

comp109275_c0_seq1

2.2

comp205035_c0_seq1

2.8

AY327135

FC592666

pfu_aug1.0_4198.1_37830.t1

   

comp248187_c0_seq1

2.6

   
   

comp274669_c0_seq1

2.5

   
 

comp118662_c0_seq1

2.8

comp300144_c0_seq1

1.5

   
 

comp154975_c0_seq1

2.4

comp300144_c0_seq2

1.4

   
 

comp224412_c0_seq1

2.2

comp303977_c0_seq1

1.3

   
 

comp342153_c0_seq1

1.8

comp303977_c0_seq2

1.2

   

Six3/Six6 HIX0029857.12/HIX0037682.12

-

-

comp182859_c0_seq1

2.1

EB275185

FC753769

pfu_aug1.0_806.1_22307.t1

   

comp182859_c0_seq2

1.9

   

Lhx2/9 HIX0008367.14/HIX0001444.16

comp60271_c0_seq1

2.8

comp451347_c0_seq1

0.7

EB350439

FC764248

pfu_aug1.0_8005.1_53075.t1

 

comp96799_c0_seq1

2.6

     
 

comp96799_c0_seq2

1.3

     
 

comp96799_c0_seq3

1.6

     
 

comp264946_c0_seq1

2.4

     
 

comp343477_c0_seq1

2.0

     

Otx1/2 HIX0011692.15/HIX0002090.13

comp180575_c0_seq1

2.7

comp128859_c0_seq1

2.0

EB253122

FC696152

pfu_aug1.0_595.1_65534.t1

   

comp128859_c0_seq2

4.6

   
 

comp433132_c0_seq1

1.3

comp150711_c0_seq1

3.4

   
   

comp150711_c0_seq2

3.8

   

S-crystallin/GST AAA91343

-

-

comp14159_c0_seq1

24.4

-

-

-

   

comp137735_c0_seq1

3.8

   
   

comp122201_c0_seq1

0.9

   
   

comp26952_c0_seq1

21.7

   
   

comp12240_c0_seq2

21.0

   
   

comp12240_c0_seq3

19.5

   
   

comp122201_c0_seq2

1.4

   
   

comp154828_c0_seq1

2.5

   
   

comp128004_c0_seq1

3.4

   
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