Table 2 |
|||||||
|
List of 12 linked sets involving the duplication of more than one gene locus in S. cerevisiae with KS < 0.35 |
|||||||
|
Linked set |
Paralogous set A |
Paralogous set B |
KS |
Average KS |
Structural categories |
Chromosomal location |
Duplication span (bp) |
|
|
|||||||
|
1 |
YLR154C-H |
YLR157C-C |
0.0000 |
0.0000 |
Complete |
XII/XII |
7,167 |
|
YLR155C |
YLR158C |
0.0000 |
Complete |
||||
|
YLR156W |
YLR159W |
0.0000 |
Complete |
||||
|
YLR156C-A |
YLR159C-A |
0.0000 |
Complete |
||||
|
YLR157C |
YLR160C |
0.0000 |
Complete |
||||
|
YLR157W-D |
YLR161W |
0.0000 |
Partial |
||||
|
2 |
YHR053C |
YHR055C |
0.0000 |
0.0000 |
Complete |
VIII/VIII |
1,816 |
|
YHR054C |
YHR056C |
0.0000 |
Partial |
||||
|
3 |
YCL065W |
YCR041W |
- |
0.0019 |
Chimeric |
III/III |
2,509 |
|
YCL066W |
YCR040W |
0.0000 |
Complete |
||||
|
YCL067C |
YCR039C |
0.0000 |
Complete |
||||
|
YCL068C |
YCR038C |
0.0058 |
Chimeric |
||||
|
4 |
YNL033W |
YNL019C |
0.0000 |
0.0077 |
Complete |
XIV/XIV |
4,247 |
|
YNL034W |
YNL018C |
0.0450 |
Complete |
||||
|
5 |
YAR073W/75W |
YHR216W |
0.1074 |
0.0087 |
Complete |
I/VIII |
7,445 |
|
YAR071W |
YHR215W |
0.0069 |
Complete |
||||
|
YAR070C |
YHR214C-B |
0.0000 |
Complete |
||||
|
YAR069C |
YHR214C-D |
0.0000 |
Complete |
||||
|
6* |
YKR106W |
YCL073C |
0.0359 |
0.0243 |
Complete |
XI/III |
6,928 |
|
YKR105C |
YCL069W |
0.0127 |
Complete |
||||
|
7 |
YDR543C |
YER188C |
0.0608 |
0.0377 |
Complete |
IV/V |
7,481 |
|
YDR545W |
YER189W |
0.0147 |
Complete |
||||
|
8 |
YJR162C |
YNL337W |
0.0000 |
0.0409 |
Complete |
X/IV |
2,916 |
|
YJR161C |
YNL336W |
0.0818 |
|||||
|
9 |
YCR107W/AAD3 |
YOL165C |
0.0430 |
0.0430 |
Complete |
III/XV |
5,952 |
|
YCR108C |
YOL166W |
- |
Complete |
||||
|
10 |
YAR050W |
YHR211W |
0.3081 |
0.0449 |
Complete |
I/VIII |
19,614 |
|
YAR060C |
YHR212C |
0.0000 |
Complete |
||||
|
YAR061W |
YHR212W-A |
0.0000 |
Complete |
||||
|
YAR062W |
YHR213W |
0.0000 |
Complete |
||||
|
YAR064W |
YHR213W-B |
0.0000 |
Complete |
||||
|
YAR066W |
YHR214W |
0.0066 |
Complete |
||||
|
YAR068W |
YHR214W-A |
0.0000 |
Complete |
||||
|
11 |
YNR073C |
YEL070W |
0.0482 |
0.0817 |
Complete |
XIVI/V |
4,611 |
|
YNR072C |
YEL069C |
0.1152 |
Complete |
||||
|
12 |
YAR033W |
YGL051W |
0.0280 |
0.0973 |
Complete |
I/VII |
6,461 |
|
YAR031W |
YGL053W |
0.1667 |
Complete |
||||
|
|
|||||||
|
Columns 2 and 3 list the systematic names of the group of loci representing each paralogous set as per the Saccharomyces Genome Database. Column 4 lists the synonymous-site divergence (KS) between two paralogs within a linked set as computed by the Nei and Gojobori method with a correction for multiple hits. Column 5 presents the averaged KS value for all paralogous pairs within a linked set. Column 6 lists the particular category of structural resemblance (complete, partial or chimeric) for each duplicate pair. Column 7 lists the chromosomal location of paralogs 1 and 2, respectively. Column 8 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. *A linked set that has been classified as an ohnolog resulting from a WGD event. Dashes indicate an inability to compute synonymous divergence between the paralogs due to an altered reading frame in one or both gene copies. |
|||||||
|
Katju et al. Genome Biology 2009 10:R75 doi:10.1186/gb-2009-10-7-r75 |
|||||||
