ZRdb KZFP & Repeats
...

LTR_LTR17

  • Name
    LTR17
  • Repbase
    LTR17
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000427
Description :

LTR17/HERV17 elements are flanked by 4 bp direct repeats.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgagagacaggactagctggatttcctaggccgactaagaatccctaagcctagctgggaaggtgaccgcatccacctttaaacacggggcttgcaacttagctcacacccgaccaatcaggtagtaaagagagctcactaaaatgctaattaggcaaaaacaggaggtaaagaaatagccaatcatctatcgcctgagagcacagcgggagggacaatgatcgggatataaacccaggcattcgagccggcaacggcnaccccctttgggtcccctccctttgtatgggagctctgttttcactctattaaatcttgcaactgcactcttctggtccgtgtttgttacggctcgagctgagctttcgctcgccgtccaccactgctgtttgccgccgtcgcagacccgccgctgacttccatccctccggatccggcagggtgtccgctgtgctcctgatccagcgaggcgcccattgccgctcccgatcgggctaaaggcttgccattgttcctgcacggctaagtgcccgggttcgtcctaatcgagctgaacactagtcactgggttccacggttctcttccgtgacccacggcttctaatagagctataacactcaccgcatggcccaagattccattccttggaatccgtgaggccaagaaccccaggtcagagaacacgaggcttgccaccatcttggaagcggcccgccgccattttggaagcggcccgccaccatcttgggagctctgggagcaaggaccccccggtaaca
Repeats structure For certain families, there exists a curated collection of TE-derived proteins, which constitutes a non-redundant set. As a results, several families may lack an associated coding sequences directly linked to them. The annotation for these families is obtained from Dfam. :
...
Peak overlapping A ChIP-seq peak of KZFPs that intersects with a certain repeats sequence on the genome. :
# KZFP name Record number KZFP age(Mya) Time correlation with Repeats
1 ZNF468 159 28.9 Highly correlated
2 ZFP57 123 87.0 Weakly correlated
3 ZNF669 81 43.0 Weakly correlated
4 ZNF766 63 43.0 Weakly correlated
5 ZIM3 38 87.0 Weakly correlated
6 ZNF175 36 94.0 Weakly correlated
7 ZNF317 24 99.0 Weakly correlated
8 ZNF793 23 99.0 Weakly correlated
9 ZNF197 22 99.0 Weakly correlated
10 ZNF589 20 28.9 Highly correlated
11 ZNF28 16 28.9 Highly correlated
12 ZKSCAN8 16 160.0 Weakly correlated
13 ZNF273 13 28.9 Highly correlated
14 ZNF584 11 99.0 Weakly correlated
15 ZNF679 10 28.9 Highly correlated
16 ZNF141 10 43.0 Weakly correlated
17 ZNF382 8 99.0 Weakly correlated
18 ZNF274 7 99.0 Weakly correlated
19 ZNF263 6 180.0 Weakly correlated
20 ZNF723 6 15.2 Moderately correlated
21 ZNF75D 6 94.0 Weakly correlated
22 ZNF534 5 19.6 Moderately correlated
23 ZNF479 4 6.4 Weakly correlated
24 ZNF786 4 99.0 Weakly correlated
25 ZKSCAN1 4 160.0 Weakly correlated
26 ZNF140 4 99.0 Weakly correlated
27 ZNF18 4 160.0 Weakly correlated
28 ZNF394 3 99.0 Weakly correlated
29 ZNF429 3 28.9 Highly correlated
30 ZNF705D 3 28.9 Highly correlated
31 ZNF157 2 99.0 Weakly correlated
32 ZNF101 2 43.0 Weakly correlated
33 ZNF705B 2 28.9 Highly correlated
34 ZNF597 2 94.0 Weakly correlated
35 ZNF585B 2 99.0 Weakly correlated
36 ZNF585A 2 99.0 Weakly correlated
37 ZNF558 2 99.0 Weakly correlated
38 ZNF251 2 94.0 Weakly correlated
39 ZNF490 2 43.0 Weakly correlated
40 ZNF284 2 43.0 Weakly correlated
41 ZNF136 1 74.0 Weakly correlated
42 ZNF93 1 8.6 Weakly correlated
43 ZNF92 1 28.9 Highly correlated
44 ZNF84 1 99.0 Weakly correlated
45 ZNF823 1 43.0 Weakly correlated
46 ZNF417 1 28.9 Highly correlated
47 ZNF44 1 43.0 Weakly correlated
48 ZNF778 1 74.0 Weakly correlated
49 ZNF124 1 43.0 Weakly correlated
50 ZNF765 1 8.6 Weakly correlated
51 ZNF763 1 15.2 Moderately correlated
52 ZNF133 1 99.0 Weakly correlated
53 ZNF560 1 43.0 Weakly correlated
54 ZFP37 1 99.0 Weakly correlated
55 ZNF701 1 28.9 Highly correlated
56 ZNF485 1 94.0 Weakly correlated
57 ZNF671 1 94.0 Weakly correlated
58 ZNF334 1 99.0 Weakly correlated
59 ZNF554 1 99.0 Weakly correlated
60 ZNF202 1 160.0 Weakly correlated
KZFPs Motif in Repeats The motif of KZFPs found by the meme-chip appears in the repeats sequence. :
# KZFP name Record number KZFP age(Mya) Time correlation with Repeats
1 ZNF468 148 28.9 Highly correlated
2 ZIM3 24 87.0 Weakly correlated
3 ZNF273 13 28.9 Highly correlated
4 ZNF317 12 99.0 Weakly correlated
5 ZNF793 11 99.0 Weakly correlated
6 ZFP57 11 87.0 Weakly correlated
7 ZNF141 7 43.0 Weakly correlated
8 ZNF534 3 19.6 Moderately correlated
9 ZNF75D 3 94.0 Weakly correlated
10 ZNF28 2 28.9 Highly correlated
11 ZNF723 2 15.2 Moderately correlated
12 ZNF263 2 180.0 Weakly correlated
13 ZNF140 1 99.0 Weakly correlated
14 ZNF778 1 74.0 Weakly correlated
15 ZNF417 1 28.9 Highly correlated
16 ZNF485 1 94.0 Weakly correlated
17 ZNF766 1 43.0 Weakly correlated
18 ZNF585A 1 99.0 Weakly correlated
KZFPs Motif in Repeats Consensus The motif of KZFPs found by the meme-chip can find the corresponding region on the consensus sequence of repeats. :
# KZFP name KZFP age(Mya) Time correlation with Repeats
1 ZFP57 87.0 Weakly correlated
2 ZNF273 28.9 Highly correlated
3 ZNF468 28.9 Highly correlated
4 ZNF793 99.0 Weakly correlated