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Ancient Genomic Architecture for Mammalian Olfactory Receptor Clusters |
Ronny Aloni, Tsviya Olender and Doron Lancet
Genome
Biology, 2006 Oct 1;7(10):R88 �
CLIC is CLuster In Conservation- a set of multi-species conserved gene arrays.
We developed a new and general tool for genome-wide definition of genomic gene clusters conserved in multiple species. Syntenic Orthologs, defined as gene pairs showing conservation of both genomic location and coding sequence, were subjected to a graph theory algorithm for discovering CLICs (clusters in conservation). When applied to ORs (olfactory receptors) in five mammals, including the marsupial opossum, more than 90% of the OR genes were found within a framework of 48 multi-species CLICs, invoking a general conservation of gene order and composition.
These CLICs demonstrate that most of the mammalian olfactory receptor clusters
have a common ancestry, preceding the split between marsupials and placental mammals.
List of all multi-species CLICs
|
CLIC number |
Human |
Mouse |
Rat |
Dog |
Opossum |
|||||
|
clusters |
n genes |
clusters |
n genes |
clusters |
n genes |
clusters |
n genes |
clusters |
n genes |
|
|
- |
0 |
chr4@117.8 |
15 |
chr5@139.3 |
15 |
chr15@3.3 |
4 |
s13629@2.4 |
6 |
|
|
chr1@111.1 |
1 |
chr3@106.6 |
1 |
chr2@202.2 |
1 |
chr6@42.7 |
1 |
s13511@1.9 |
1 |
|
|
chr1@144.1 |
2 |
chr3@96.9 |
1 |
chr2@192.2 |
2 |
chr17@60.7 |
4 |
s19281@0.7 |
3 |
|
|
chr1@155.4 chr1@156.2 |
31 |
chr1@173 chr1@174.2 |
21 |
chr13@89.5 chr13@90.2 |
28 |
chr38@19.8 |
27 |
s15142@1.8 s16926@0.2 s19280@0.6 |
31 |
|
|
chr1@244.6 |
56 |
chr11@58.4 chr11@59.3 chr16@18.2 chr7@80.4 |
49 |
chr10@44.6 chr10@45.9 chr11@83.7 chr1@142.7 |
79 |
chr14@4.6 chr16@4.4 chr8@3.6 |
53 |
s13645@0.9 |
18 |
|
|
- |
0 |
chr6@73.8 |
1 |
chr4@107 |
1 |
- |
0 |
- |
0 |
|
|
chr2@240.7 |
4 |
chr1@92.4 |
8 |
chr9@92 |
11 |
chr25@53.2 |
16 |
- |
0 |
|
|
- |
0 |
chr14@12.8 |
3 |
chr15@12.5 |
3 |
- |
0 |
- |
0 |
|
|
chr3@99.5 |
18 |
chr16@58.1 |
28 |
chr11@42.2 |
36 |
chr33@8.3 |
11 |
s12721@4.5 |
12 |
|
|
- |
0 |
chr11@50.8 |
7 |
chr10@36.6 |
10 |
chr11@9.2 |
2 |
- |
0 |
|
|
chr5@180.1 chr5@180.6 |
5 |
chr11@49.1 |
16 |
chr10@34.3 chr10@34.9 |
19 |
- |
0 |
s16810@0.6 |
5 |
|
|
chr6@28.1 chr6@28.5 chr6@29.4 |
34 |
chr13@20.9 chr17@35.5 |
63 |
chr17@50.6 chr17@51.3 chr20@0.8 |
85 |
chr35@28.1 chr35@29.2 |
10 |
s14804@0.5 |
27 |
|
|
chr7@4.9 |
1 |
chr5@142.2 |
1 |
- |
0 |
chr6@14.9 |
1 |
- |
0 |
|
|
chr7@141 |
4 |
chr6@40.7 |
1 |
chr4@68.4 |
2 |
chr16@13 |
3 |
- |
0 |
|
|
chr7@142.3 |
4 |
chr6@41.9 |
1 |
- |
0 |
chr16@12.4 |
3 |
s12761@0.2 |
10 |
|
|
chr7@142.7 chr7@143.3 |
21 |
chr6@43 |
23 |
chr4@70.9 |
20 |
chr16@11.7 |
19 |
s12761@1.3 |
24 |
|
|
chr9@35.9 |
7 |
chr4@43.7 |
6 |
chr5@60.2 |
8 |
chr11@53.8 |
8 |
- |
0 |
|
|
- |
0 |
chr13@62.6 |
2 |
chr17@5.5 |
2 |
- |
0 |
- |
0 |
|
|
chr9@104.5 |
12 |
chr4@52.8 |
5 |
chr5@70.2 |
11 |
chr11@61.9 |
12 |
s18607@0.4 |
22 |
|
|
chr9@111.2 |
1 |
chr4@58.7 |
1 |
chr5@76.8 |
1 |
chr11@67.4 |
1 |
- |
0 |
|
|
chr9@122.5 |
15 |
chr2@36.7 |
34 |
chr3@16 |
39 |
chr9@52.6 |
8 |
s15087@1.4 |
18 |
|
|
chr10@45.1 |
2 |
chr6@117 chr7@134.8 |
25 |
chr1@200.6 chr4@153.1 |
38 |
chr28@5.3 |
5 |
s13575@1.4 |
36 |
|
|
chr11@5.2 |
103 |
chr7@97.5 chr7@99.1 |
146 |
chr1@161.7 |
149 |
chr21@30.7 |
111 |
s15168@3.2 s16805@1.4 |
149 |
|
|
chr11@6.8 |
8 |
chr7@100.9 |
24 |
chr1@164.2 |
31 |
chr21@32.6 |
24 |
- |
0 |
|
|
chr11@7.8 |
8 |
chr7@102.3 |
41 |
chr1@166 |
47 |
chr21@33.7 |
9 |
- |
0 |
|
|
chr11@48.4 chr11@50 chr11@51.3 chr11@55.7 |
146 |
chr2@87.6 |
251 |
chr3@71.6 |
300 |
chr18@50.7 |
144 |
s13644@1 s18549@1.3 s19209@1.4 |
281 |
|
|
chr11@57.7 chr11@59.1 |
42 |
chr19@12.1 |
76 |
chr1@215.2 chr1@216.5 |
66 |
chr18@47.9 chr18@48.7 |
40 |
s12795@1.2 s12795@2.8 s12795@3.4 |
111 |
|
|
chr11@74.5 |
3 |
chr7@93.8 |
2 |
chr1@157.2 |
3 |
chr21@26.5 |
4 |
- |
0 |
|
|
chr11@123.6 |
44 |
chr9@38.9 |
112 |
chr8@39.3 chr8@41 chr8@42.7 |
139 |
chr5@13.2 |
44 |
s18579@6.8 s18622@0.4 |
77 |
|
|
chr12@47.1 |
8 |
chr15@98.4 |
7 |
chr7@137.2 |
8 |
chr27@9.2 |
22 |
- |
0 |
|
|
chr12@54.1 |
28 |
chr10@129.3 |
58 |
chr7@5.4 |
194 |
chr10@19.4 chr10@3.1 chr27@3.2 chr3@34.2 |
49 |
s12526@0.2 s15221@0.8 |
82 |
|
|
chr14@19.5 chr15@100.2 chr15@19.8 |
46 |
chr14@45.4 chr2@111.3 |
64 |
chr15@26.3 chr3@97.3 |
68 |
chr15@20.4 chr30@3.3 |
39 |
s11704@0.4 s19262@7 |
74 |
|
|
chr14@20.2 |
1 |
- |
0 |
chr15@27.1 |
1 |
chr15@20.9 |
1 |
- |
0 |
|
|
chr14@20.7 |
1 |
chr14@47.1 |
1 |
chr15@27.5 |
1 |
- |
0 |
- |
0 |
|
|
chr14@21.2 |
5 |
chr14@47.5 |
6 |
chr15@27.9 |
7 |
chr15@21.6 |
2 |
s19262@4.7 |
8 |
|
|
chr14@22.2 |
2 |
chr14@48.8 |
1 |
chr15@32.4 |
1 |
- |
0 |
s19262@3.2 |
7 |
|
|
- |
0 |
chr7@78.7 |
2 |
chr1@141.2 |
1 |
- |
0 |
- |
0 |
|
|
chr16@3.3 |
3 |
chr16@3.4 |
4 |
chr10@12.4 |
26 |
chr6@39.5 |
2 |
s15093@0.9 |
1 |
|
|
chr17@3.1 |
16 |
chr11@73.6 |
43 |
chr10@61 |
49 |
chr9@39.8 |
15 |
- |
0 |
|
|
chr17@53.6 |
2 |
chr11@87.6 |
3 |
chr10@76.2 |
3 |
chr9@25.4 |
3 |
s13263@12.4 |
2 |
|
|
chr19@8.7 |
1 |
- |
0 |
- |
0 |
chr20@56.1 |
1 |
- |
0 |
|
|
chr19@9.2 |
10 |
chr9@19.4 |
43 |
chr8@16.2 chr8@18.1 |
74 |
chr20@54.4 |
20 |
- |
0 |
|
|
- |
0 |
chr8@84.5 |
1 |
chr19@23.2 |
1 |
- |
0 |
- |
0 |
|
|
- |
0 |
chr8@82.8 |
1 |
chr19@26.3 |
1 |
- |
0 |
- |
0 |
|
|
chr19@14.9 |
14 |
chr10@78.9 |
8 |
chr7@12.4 |
16 |
chr20@50.3 |
41 |
s11688@0.2 |
11 |
|
|
chr19@15.9 |
6 |
chr8@71.2 |
3 |
chr16@18.2 |
1 |
chr20@49.3 |
16 |
s11661@2.3 |
16 |
|
|
chr19@62 |
1 |
chr7@5.7 |
8 |
chr1@65.8 |
7 |
chr1@104 |
5 |
- |
0 |
|
|
chrX@130.3 |
9 |
chrX@44.5 chrX@44.9 |
3 |
chrX@136.4 chrX@137.1 |
5 |
chrX@105.6 |
3 |
s11989@0.2 |
9 |
|