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Table 4 Tabulation of all ALDH genes in this study that show evidence of gene duplication, compared with that in the human genome

From: Update on the aldehyde dehydrogenase gene (ALDH) superfamily

Species

Recommended gene name

RefSeq Protein ID

Protein length

Ka/Ks

Aligned sequences

% AA (unaligned)

% AA Identity (unaligned included)

% AA Identity (unaligned excluded)

Functional protein

Recommended protein name

Cow

ALDH1A3

XP_583647.3

537

0.234

-

-

-

-

Yes

ALDH1A3

 

ALDH1A3P1

XP_001789867.1

127

0.260

(a)/(b)

76.4

23.6

100

No

Pseudogene

Zebrafish

aldh2.1

NP_956784.1

516

0.278

-

-

-

-

Yes

Aldh2.1

 

aldh2.2

NP_998466.2

516

0.112

(a)/(b)

0

95.2

95.2

Yes

Aldh2.2

 

aldh2.3

XP_002662252.1

516

0.041

(a)/(c)

0

95.2

95.2

Yes

Aldh2.3

     

(b)/(c)

0

99.6

99.6

-

-

Zebrafish

aldh3a2.1

NP_997814.1

488

0.175

-

-

-

-

Yes

Aldh3a2.1

 

aldh3a2.2

XP_001335979.2

489

0.402

(a)/(b)

1.8

63.1

64.9

Yes

Aldh3a2.1

 

aldh3a2.3

XP_002666107.1

514

0.175

(a)/(c)

5.1

65.8

70.9

Yes

Aldh3a2.3

 

aldh3a2p1

NP_001004658.1

169

0.190

(a)/(d)

65.6

23.5

89.1

No

Pseudogene

     

(b)/(c)

7.5

57.4

64.9

-

-

     

(b)/(d)

66

18.9

84.9

-

-

     

(c)/(d)

67.1

31.3

98.4

-

-

Zebra finch

ALDH3A2

XP_002198810.1

510

0.396

-

-

-

-

Yes

ALDH3A2

 

ALDH3A3

XP_002196134.1

526

0.625

(a)/(b)

5.6

84.1

89.7

Yes

ALDH3A3

Cow

ALDH3B1

NP_001068986.1

486

0.335

-

-

-

-

Yes

ALDH3B1

 

ALDH3B4

XP_585724.2

486

0.550

(a)/(b)

4.5

80.9

85.4

Yes

ALDH3B4

Zebra finch

ALDH3B1

XP_002196917.1

450

0.308

-

-

-

-

Yes

ALDH3B1

 

ALDH3B5

XP_002196928.1

341

0.434

(a)/(b)

39.9

53.2

93.1

Yes

ALDH3B5

Rat

Aldh3b2

XP_001068348.2

483

0.436

-

-

-

-

Yes

ALDH3B2

 

Aldh3b3

XP_001068253.1

530

0.239

(a)/(b)

11

76.9

87.9

Yes

ALDH3B3

Mouse

Aldh3b2

NP_001170909.1

479

0.270

-

-

-

-

Yes

ALDH3B2

 

Aldh3b3

XP_900106.1

479

0.229

(a)/(b)

0

86.4

86.4

Yes

ALDH3B3

Zebrafish

aldh5a1.1

NP_001103938.1

404

< 0.001

-

-

-

-

Yes

Aldh5a1.1

 

aldh5a1.2

XP_002664997.1

514

0.008

(a)/(b)

21.4

78.6

100

Yes

Aldh5a1.2

Macaque

ALDH7A1

XP_002804539.1

502

0.180

-

-

-

-

Yes

ALDH7A1

 

ALDH7A1P5

XP_001111963.1

538

1.289

(a)/(b)

16.3

82.3

98.6

No

Pseudogene

Zebrafish

aldh9a1.1

NP_958879.1

508

0.126

-

-

-

-

Yes

Aldh9a1.1

 

aldh9a1.2

NP_958916.1

518

0.154

(a)/(b)

1.9

71.2

73.1

Yes

Aldh9a1.2

 

aldh9a1.3

NP_001119952.1

508

0.190

(a)/(c)

0

94.9

94.9

Yes

Aldh9a1.3

     

(b)/(c)

1.9

70.3

72.2

-

-

Zebrafish

aldh18a1.1

NP_001077015.1

782

0.103

-

-

-

-

Yes

Aldh18a1.1

 

aldh18a1.2

XP_002664020.1

782

0.826

(a)/(b)

0

100

100

Yes

Aldh18a1.2

  1. Included are protein lengths (in number of amino acids [AAs]), Ka/Ks values, RefSeq protein IDs and recommended protein names. '% AA identity' denotes the absolute number of identical AAs relative to the absolute number of AA locations. '% AA unaligned' indicates the percentage of AAs that are represented by either a gap in the alignment of either sequence or an overhang if one sequence is longer than the other. '% AA identity (unaligned excluded)' indicates the percentage of AA locations that are identical when unaligned AAs are excluded from the total number of AA locations. For example, a 127-AA fragment of a 537-AA protein, which is identical except for the truncation, would have 127/537 = 23.6 per cent identity, of which 410/537 = 76.4 per cent is represented by unaligned residues (AAs in the longer sequence that have no correlation with the shorter sequence) but, excluding those residues, 127/127 = 100 per cent paired AAs are identical. The final column indicates which sequences are being compared for percentage identity, percentage gaps and percentage identity (excluding gaps)
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Human Genomics

ISSN: 1479-7364