Table 2 |
||||
|
Poly(A) tails of L1s |
||||
|
Family id |
L1 id (Chrom_ number) |
Polyadenylation signal* |
Alignment ends in A-rich stretch*,† |
Tail |
|
|
||||
|
1 |
2_4643 |
x |
x |
AAAAAAATAAATAAA |
|
Un_953 |
||||
|
Un_964 |
||||
|
2 |
2_7114 |
x |
x |
AAAAAAAAAAATAAATAAATAAATAAAA |
|
10_7718 |
||||
|
1_8235 |
AAAATAAAAAAATAAA |
|||
|
1_8446 |
AAAAAAATAAATAAATAAAAAATAAATAAA |
|||
|
4_17987 |
AAAAAAAAAAA |
|||
|
3 |
2_17349 |
aataaa |
x |
AAAAAAAAAAAAAAAAGAAAAA |
|
8_15027 |
||||
|
4 |
2_22677 |
aataaa |
x |
ACAAAAAAGAAAAAAA |
|
12_173 |
AAAAAATAAATGAATAAA |
|||
|
5 |
2_25220 |
attaaa |
x |
AAAATAATTAAAACATAAAAAAAAAAA |
|
X_13522 |
AAAAAAAAAATTAAAAAAAAAAAA |
|||
|
6 |
2_25509 |
x |
x |
AAAAAAAAAAAAAAAAAA |
|
7_87 |
AAAAAAAAAAAAAA |
|||
|
7 |
3_1865 |
attaaa |
A(19) |
AAAAAAAAACAAAGAACAAAAAAAAA |
|
15_6107 |
AAAAAAAAAAAAAAAAAAA |
|||
|
1_1921 |
||||
|
8 |
3_9516 |
x |
short A(8) |
AAAAAAAGAAAAAGA |
|
3_8906 |
||||
|
9 |
3_21623 |
x |
A(39) |
AATAAAAATAAAAAAAGAAAA |
|
3_21596 |
||||
|
10 |
5_11657 |
x |
x |
AAAAAAATGA |
|
7_871 |
||||
|
11 |
6_4059 |
x |
A(10) |
AAAGTATAAAAAAA |
|
2_23164 |
ATAATAAATTAAAAAAAAAGAAA |
|||
|
9_9971 |
ATAATAAATTAAAAAAAA |
|||
|
12 |
6_5918 |
aataaa |
x |
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA |
|
4_13249 |
AGAAGCAAAAAAAAAAAAAAAAAAAAAAAA |
|||
|
13 |
9_6571 |
x |
short A(8) |
AAAAATAAATAAATAAACAGATAAATAAATAAATAAATAA |
|
7_6559 |
||||
|
14 |
9_10645 |
aataaa |
x |
ACAAATAAAAAACAAACAAACAAAAA |
|
11_9728 |
AAAAAAAAAAAAAAAAAAAAA |
|||
|
15 |
12_12007 |
aataaa |
A(6) |
AATAAATTAAAAAACTAAAAAAAAAAAAAAAAAGA |
|
4_15129 |
||||
|
16 |
13_482 |
x |
x |
AAAGAAAACAAAAAA |
|
X_17433 |
||||
|
17 |
13_5911 |
aataaa |
A(12) |
AAAAAAAAAA |
|
6_6642 |
||||
|
18 |
13_10012 |
x |
short |
AGAAAAAAAAAAAAGA |
|
22_2286 |
AAAAAAAACAA |
|||
|
Y_1832 |
AAAAAAAACAA |
|||
|
22_2857 |
||||
|
19 |
14_785 |
x |
A(21) |
AAAAAAATAAATAAATAAGAAAAACATTA |
|
13_6443 |
||||
|
20 |
14_2523 |
attaaa |
short |
AAAATGAAAAAATACTAAAAAAAAAA |
|
8_9380 |
AACAGAGAAAAAAAAAAAAAA |
|||
|
21 |
15_2689 |
aataaa |
A(35) |
AAAAAATAAAAAATAAAAAATAAAAAATAATTAAAAAAAAGAAAATTAAAAAAAAAAGAAAA |
|
2_25800 |
AAAAAATAAAATAAAATAAAAATAAATAAAAATAAATTAAAAAAA |
|||
|
18_6857 |
||||
|
18_6870 |
||||
|
22 |
16_1147 |
aataaa |
A(10) |
ACAGGAAAAAAA |
|
5_5158 |
||||
|
23 |
19_4956 |
x |
A(11) |
AAAAATAAATAAATAAA |
|
19_4990 |
||||
|
24 |
20_1331 |
x |
A(23) |
AAAAAAAAAAAAAAAAAAAAAAAA |
|
Y_3590 |
||||
|
25 |
X_11447 |
x |
x |
AAAAAAAAAAA |
|
5_7396‡ |
AACCAGAAAAAAAAAAAA |
|||
|
7_12643‡ |
AACCAGAAAAAAAAAA |
|||
|
18_6119 |
||||
|
6_17369 |
||||
|
|
||||
|
*'x' indicates that a polyadenylation signal was not found or the alignment did not end in an A-rich stretch. †'short' indicates that the putative 3'-transduced sequence may be a composite transduction event; no L1 family member was found with downstream sequence that aligned with the distal part of the transduced sequence. If the proximal sequence alignment ended at an A-rich sequence, the number of As is indicated in parentheses. ‡These L1-TDs are duplicates. |
||||
|
Szak et al. Genome Biology 2003 4:R30 doi:10.1186/gb-2003-4-5-r30 |
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