Table 1

List of 56 gene duplications in S. cerevisiae with KS < 0.35 that appear to span a single locus only

Duplicate pair

KS

Structural category

Chromosomal location

Duplication span (bp)

5' homology (bp)

3' homology (bp)


*YPL220W/YGL135W

0.0000

Complete

XVI/VII

657

3

0

*YBR031W/YDR012W

0.0038

Complete

II/IV

1,102

1

12

*YDR342C/YDR343C

0.0052

Complete

IV/IV

1,896

97

86

*YPR080W/YBR118W

0.0066

Complete

XVI/II

1,381

0

4

*YOR133W/YDR385W

0.0072

Complete

XV/IV

2,533

0

3

YMR321C/YPL273W

0.0155

Chimeric

XIII/XVI

510

0

197

*YDL182W/YDL131W

0.0222

Chimeric

IV/IV

1,220

0

0

*YJL138C/YKR059W/

0.0237

Complete

X/XI

1,192

4

0

YIL177C/YLR462W_464W_466W

0.0238

Complete

IX/XII

6,907

816

423

*YBR181C/YPL090C

0.0388

Complete

II/XVI

1,107

4

0

*YDL136W/YDL191W

0.0395

Complete

IV/IV

858

2

2

YBL107W-A/YER138W-A

0.0435

Complete

II/V

310

153

52

*YNL209W/YDL229W

0.0612

Complete

XIV/IV

1,883

6

35

*YDL184C/YDL133C-A/

0.0612

Complete

IV/IV

113

19

17

*YBL072C/YER102W

0.0817

Complete

II/V

607

3

1

*YJR145C/YHR203C

0.0854

Complete

X/VIII

1,060

6

1

*YHR141C/YNL162W

0.0918

Complete

VIII/XIV

843

10

0

*YPR156C/YGR138C

0.0985

Chimeric

XVI/VII

1,419

0

0

YNL030W/YBR0009C

0.1062

Complete

XIV/II

353

41

0

*YJR009C/YGR192C

0.1123

Complete

X/VII

1,055

56

0

YAL005C/YLL024C

0.1147

Complete

I/XII

1,931

0

2

*YGL076C/YPL198W

0.1196

Complete

VII/XV1

1,658

5

0

*YPR102C/YGR085C

0.1237

Complete

XVI/VII

534

6

3

*YER074W/YIL069C

0.1333

Complete

V/IX

876

2

1

*YHL001W/YKL006W

0.1429

Complete

VIII/XI

819

1

2

*YIL018W/YFR031C-A

0.1523

Complete

IX/VI

1,167

2

0

*YGR118W/YPR132W

0.1546

Complete

VII/XVI

810

4

3

*YDL131W/YDL182W

0.1768

Chimeric

IV/IV

1,232

0

0

*YLL045C/YHL033C

0.1809

Complete

XII/VIII

774

0

3

*YDR447C/YML024W

0.1896

Complete

IV/XIII

812

3

0

YGL258W/YOR387C

0.1939

Complete

VII/XV

1,424

796

7

*YNL301C/YOL120C

0.1955

Complete

XIV/XV

1,009

1

0

*YBR048W/YDR025W

0.1987

Complete

II/IV

985

3

0

*YLR287C-A/YOR182C

0.2022

Complete

XII/XV

628

5

0

*YNL302C/YOL121C

0.2076

Complete

XIV/XV

991

5

0

YIL029C/YPR071W

0.2154

Chimeric

IX/XVI

659

149

0

YGL147C/YNL067W

0.2490

Complete

VII/XIV

576

0

0

*YDR450W/YML026C

0.2491

Complete

IV/XIII

881

4

1

*YMR242C/YOR312C

0.2504

Complete

XIII/XV

1,001

5

0

*YBR191W/YPL079W

0.2508

Complete

II/XVI

910

5

1

*YBL027W/YBR084-C

0.2698

Complete

II/II

1,079

3

0

*YDR312W/YHR066W

0.2703

Complete

IV/VIII

1,362

0

0

*YDL083C/YMR143W

0.2838

Complete

IV/XIII

984

4

4

*YEL034W/YJR047C

0.2838

Complete

V/X

475

0

1

*YGR034W/YLR344W

0.2841

Complete

VII/XII

862

0

1

*YGL031C/YGR148C

0.2862

Complete

VII/VII

471

0

3

*YDL082W/YMR142C

0.2970

Complete

IV/XIII

1,007

3

2

*YLR448W/YML073C

0.2992

Complete

XII/XIII

958

10

2

*YLR029C/YMR121C

0.3061

Complete

XII/XIII

619

4

0

*YMR230W/YOR293W

0.3132

Complete

XIII/XV

771

15

1

*YLR441C/YML063W

0.3170

Complete

XII/XIII

774

5

1

*YCR024C-A/YEL017C-A

0.3176

Complete

III/V

137

5

0

*YGR027C/YLR333C

0.3187

Complete

VII/XII

345

17

1

YHR043C/YHR044C

0.3245

Complete

VIII/VIII

776

1

34

*YMR186W/YPL240C

0.3319

Complete

XIII/XVI

2,132

2

0

YDL075W/YLR406C

0.3363

Complete

IV/XII

768

3

2


Columns 1 and 2 list the systematic names of the two paralogs in question as per the Saccharomyces Genome Database. *A gene duplicate pair that has been classified as an ohnolog resulting from a WGD event. An ancestrally single locus that currently exists as three adjacent genes due to frame-shift mutations. Column 3 lists the synonymous-site divergence (KS) between the two paralogs as computed by the Nei and Gojobori method with a correction for multiple hits. Column 4 lists the particular category of structural resemblance (complete, partial or chimeric). Column 5 lists the chromosomal location of paralogs 1 and 2, respectively. Column 6 provides a minimal estimate of the length of the duplicated region, based on current visual inspection of the extent of sequence homology across the paralogs' coding and flanking regions. Columns 7 and 8 list the extent of discernible sequence homology between the paralogs in their 5' and 3' flanking regions, respectively.

Katju et al. Genome Biology 2009 10:R75   doi:10.1186/gb-2009-10-7-r75

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