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Table 1 Co-ortholog nomenclature and genomic locations in the Fugu genome

From: Comparative genomics using Fugu reveals insights into regulatory subfunctionalization

Human gene*

Co-ortholog name†

Fugu scaffold (S) location (kb)‡

Length (kb)§

Prop 'N's (%)¶

Fugu protein accession code¥

BCL11A

bcl11a.1

S113: 140.8-518.9

378.1

2.98

NEWSINFRUP00000142044

 

bcl11a.2

S62: 603.7-740.4

136.7

0.18

NEWSINFRUP00000144873

EBF1

ebf1.1

S97: 400.4-483.3

82.9

0.82

NEWSINFRUP00000127762

 

ebf1.2

S71: 999.3-1,091.7

92.4

1.90

NEWSINFRUP00000148373

FIGN

fign.1

S36: 382.6-486.8

104.2

0.16

NEWSINFRUP00000153680

 

fign.2

S46: 126.9-219.9

93

0.39

NEWSINFRUP00000177971

PAX2

pax2.1

S86: 541.7-669.8

128.1

0.29

-

 

pax2.2

S59: 768.9-898.3

132.7

3.59

-

SOX1

sox1.1

S42: 1,020-1,105

85

1.49

[Swiss-Prot: Q6WNU3_FUGRU]

 

sox1.2

S313: 107.2-174.9

67.7

8.9

[Swiss-Prot: Q6WNU2_FUGRU]

UNC4.1

unc4.1.1

S15: 761.1-825.5

61

0.32

NEWSINFRUP00000154395

 

unc4.1.2

S40: 1,435-1,537

102

0.96

NEWSINFRUG00000161008

ZNF503

znf503.1

S86: 7-220

213

3.64

NEWSINFRUP00000181530

 

znf503.2

S59, S29 (all)

148.5

3.22

NEWSINFRUP00000181454

  1. *Name of human gene ortholog. †Nomenclature of novel Fugu co-orthologs. ‡Location and extent of Fugu genomic scaffold used in multiple alignment. §Length of Fugu genomic region used in multiple alignment. ¶Proportion of Fugu genomic region that is made up of unfinished sequence (that is, runs of 'N's). ¥The protein accession code for each co-ortholog. These were derived either from Ensembl (v40.4b) or from SwissProt. Protein sequences for pax2.1 and pax2.2 were incomplete in both Ensembl and SwissProt and were reconstructed using alignments of full-length amino acid sequences from other species.