Table 2 |
||||||
|
A. thaliana LTR retroelements by chromosome |
||||||
| Chromosome 1 30,080,809 nucleotides |
Chromosome 2 19,643,621 nucleotides |
Chromosome 3 23,465,812 nucleotides |
Chromosome 4 17,549,528 nucleotides |
Chromosome 5 26,689,408 nucleotides |
Total 117,429,178 nucleotides |
|
|
|
||||||
| Pseudoviridae |
||||||
| RT only |
21 |
19 |
16 |
10 |
16 |
82 |
| Complete elements |
48 |
42 |
47 |
35 |
38 |
210 |
| Nucleotides |
239,675 |
211,083 |
285,207 |
185,127 |
199,386 |
1,120,478 |
| Percentage of total nucleotides |
0.88% |
1.24% |
1.34% |
1.21% |
0.96% |
1.1% |
| Solo LTRs |
84 |
100 |
125 |
89 |
87 |
485 |
| Nucleotides |
16,516 |
19,275 |
23,906 |
15,500 |
15,248 |
90,445 |
| Percentage of total nucleotides |
0.13% |
0.16% |
0.18% |
0.15% |
0.13% |
0.15% |
| Metaviridae |
||||||
| RT only |
16 |
30 |
41 |
23 |
32 |
142 |
| Complete elements |
37 |
34 |
45 |
18 |
32 |
166 |
| Nucleotides |
309,690 |
319,802 |
375,703 |
161,352 |
319,535 |
1,486,082 |
| Percentage of total nucleotides |
1.23% |
2.82% |
2.22% |
1.40% |
1.59% |
1.74% |
| Solo LTRs |
435 |
500 |
928 |
360 |
560 |
2,783 |
| Nucleotides |
228,115 |
257,810 |
326,484 |
179,500 |
262,187 |
1,254,096 |
| Percentage of total nucleotides |
1.15% |
1.74% |
1.71% |
1.42% |
1.24% |
1.42% |
| Athila |
||||||
| Complete elements |
7 |
8 |
8 |
4 |
11 |
38 |
| Nucleotides |
72,094 |
90,171 |
93,015 |
37,339 |
119,646 |
412,265 |
| Percentage of total nucleotides |
0.38% |
0.87% |
0.67% |
0.41% |
0.69% |
0.60% |
| Tat |
||||||
| Complete elements |
14 |
10 |
8 |
6 |
8 |
46 |
| Nucleotides |
131,154 |
102,534 |
83,327 |
68,754 |
103,112 |
591,944 |
| Percentage of total nucleotides |
0.44% |
0.54% |
0.52% |
0.46% |
0.56% |
0.50% |
| Metavirus |
||||||
| Complete elements |
16 |
16 |
29 |
8 |
13 |
82 |
| Nucleotides |
106,442 |
127,097 |
199,361 |
55,259 |
96,777 |
748,231 |
| Percentage of total nucleotides |
0.42% |
1.03% |
1.03% |
0.52% |
0.33% |
0.64% |
| Non-LTR retrotransposon |
49 |
90 |
69 |
32 |
71 |
311 |
| Total LTR contribution |
||||||
| Complete elements |
85 |
76 |
92 |
53 |
70 |
376 |
| Nucleotides |
634,695 |
798,606 |
836,968 |
457,405 |
679,255 |
3,331,357 |
| Percentage of total nucleotides |
2.11% |
4.07% |
3.57% |
2.61% |
2.55% |
2.84% |
| Solo LTRs |
519 |
600 |
1,053 |
449 |
647 |
3,268 |
| Nucleotides |
386,759 |
373,256 |
444,804 |
275,361 |
364,340 |
1,844,520 |
| Percentage of total nucleotides |
1.29% |
1.90% |
1.90% |
1.57% |
1.37% |
1.57% |
| Both |
||||||
| Nucleotides |
1,021,454 |
1,171,862 |
1,281,772 |
732,766 |
1,043,595 |
5,175,877 |
| Percentage of total nucleotides |
3.40% |
5.97% |
5.46% |
4.18% |
3.91% |
4.41% |
|
|
||||||
|
Peterson-Burch et al. Genome Biology 2004 5:R78 doi:10.1186/gb-2004-5-10-r78 |
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