ZRdb KZFP & Repeats
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LTR_MER52C

  • Name
    MER52C
  • Repbase
    MER52C
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0000857
Description :

MER52C has 4 bp TSDs, and is an LTR associated with MER51-int. Notethat MER stands for MEdium Reiteration frequency interspersed repeat. Assuch, MERs as a group are a grab bag of DNA transposons andretrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgatggcagtggctgctgccatcacgccggctgcagcagggaggcgcggctggggctgcacactccatggagccggtgggagccccgccccttctgagttggggcgggagctccccgtgccgctgcagccgcccaaaccgcggctgcagacccaggcctcctgctctacggagcaggcaggagccccgccctcctgggcggggctacagccgcccaaactgcggctgtggatccgagcctccctgtgctcttgggggagccgggagcaggcaggatctgccctcccgggtgcagctgcagccgcccgacccgcggctgcagacctgggcctcccgctccacggagcaggcaggagccggggacaagcgggagccccgccccttccgagttggcggggcgggagctcccgggtgcagctgcggcctgccctcccaggcgcaggacccgggcgtctctgcagcctgcaccctcgggggncccgggaaggaccccccccgtccctgcaggctcgggggtgtctgctcccgctgcctggcctctctccgctcccggcgcccgctccgatctcggagcggggttggggccgagccccggggccatgaatggcagcgggaggcagacagattcctgggcggaagggggcgggtccccggtaaggccccaccttcaggccagggagggcctgaaggctgggggccgggctgccagtcccgcggaccggagtggggactcgtggtgcctcttccgggcccgcccatggccgcccatggaccaatcggcacgcacttcctcccctctgaggtccataaaagccccgggctcagccagagcagggcagaggacggccagaggacgaagagggcagagagacgatgggacgggacgaccagctgcagagaggagctaccctctctgctgagagctggagacgatgggacgaccagctgcagagatgaccagctgcagagaggagctaccctctctgctgagagcttcagagacctgcagagatgacctgcctgcagagaggagccaccctctccagggcctcctctctgctgagagctgaacactcgacgggacgacctgcctacagagaggagctacccactcctctgagctgttctaacactnaataaagctcctcttcgtcttgttcacccttcacttgtctgcgtacctcattcttcctggacgcaggacaagaactcgggcaaaggcgccgcggccacagaggtttccggccagaaaaatcgacaccccaaagatcccgtaaca
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. :
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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 ZNF680 518 28.9 Weakly correlated
2 ZNF273 179 28.9 Weakly correlated
3 ZNF519 178 19.6 Weakly correlated
4 ZNF736 121 43.0 Weakly correlated
5 ZNF263 57 180.0 Weakly correlated
6 ZNF793 31 99.0 Weakly correlated
7 ZNF382 28 99.0 Weakly correlated
8 ZNF479 27 6.4 Weakly correlated
9 ZNF483 16 99.0 Weakly correlated
10 ZNF534 15 19.6 Weakly correlated
11 ZNF549 14 87.0 Weakly correlated
12 ZNF766 12 43.0 Weakly correlated
13 ZNF506 11 28.9 Weakly correlated
14 ZNF560 10 43.0 Weakly correlated
15 ZNF197 10 99.0 Weakly correlated
16 ZNF18 8 160.0 Weakly correlated
17 ZNF114 7 28.9 Weakly correlated
18 ZNF2 7 99.0 Weakly correlated
19 ZKSCAN1 7 160.0 Weakly correlated
20 ZNF394 6 99.0 Weakly correlated
21 ZNF282 6 319.0 Weakly correlated
22 ZFP37 6 99.0 Weakly correlated
23 ZNF317 6 99.0 Weakly correlated
24 ZNF558 6 99.0 Weakly correlated
25 ZNF610 6 28.9 Weakly correlated
26 ZFP69B 5 99.0 Weakly correlated
27 ZNF705B 5 28.9 Weakly correlated
28 ZNF589 5 28.9 Weakly correlated
29 ZNF257 4 0.0 Weakly correlated
30 ZNF528 4 43.0 Weakly correlated
31 ZNF169 4 94.0 Weakly correlated
32 ZNF554 4 99.0 Weakly correlated
33 ZNF792 3 94.0 Weakly correlated
34 ZNF91 3 6.0 Weakly correlated
35 ZNF320 3 28.9 Weakly correlated
36 ZNF701 3 28.9 Weakly correlated
37 ZNF705D 3 28.9 Weakly correlated
38 ZNF101 3 43.0 Weakly correlated
39 ZNF780A 3 43.0 Weakly correlated
40 ZNF175 3 94.0 Weakly correlated
41 ZNF93 2 8.6 Weakly correlated
42 ZNF808 2 19.6 Weakly correlated
43 ZNF530 2 28.9 Weakly correlated
44 ZNF723 2 15.2 Weakly correlated
45 ZFP57 2 87.0 Weakly correlated
46 ZNF324 2 99.0 Weakly correlated
47 ZNF486 2 8.6 Weakly correlated
48 ZIM3 2 87.0 Weakly correlated
49 ZNF274 2 99.0 Weakly correlated
50 ZNF140 2 99.0 Weakly correlated
51 ZNF251 2 94.0 Weakly correlated
52 ZNF33A 2 99.0 Weakly correlated
53 ZNF334 2 99.0 Weakly correlated
54 ZNF224 2 69.0 Moderately correlated
55 ZNF778 1 74.0 Highly correlated
56 ZNF264 1 99.0 Weakly correlated
57 ZNF707 1 74.0 Highly correlated
58 ZNF735 1 28.9 Weakly correlated
59 ZNF202 1 160.0 Weakly correlated
60 ZNF66 1 0.0 Weakly correlated
61 ZNF77 1 87.0 Weakly correlated
62 ZNF17 1 69.0 Moderately correlated
63 ZNF133 1 99.0 Weakly correlated
64 ZKSCAN8 1 160.0 Weakly correlated
65 ZNF878 1 43.0 Weakly correlated
66 ZNF92 1 28.9 Weakly correlated
67 ZIK1 1 87.0 Weakly correlated
68 ZNF337 1 43.0 Weakly correlated
69 ZNF490 1 43.0 Weakly correlated
70 ZNF468 1 28.9 Weakly correlated
71 ZNF44 1 43.0 Weakly correlated
72 ZNF445 1 99.0 Weakly correlated
73 ZNF420 1 94.0 Weakly correlated
74 ZNF41 1 99.0 Weakly correlated
75 ZNF383 1 99.0 Weakly correlated
76 ZNF343 1 74.0 Highly correlated
77 ZNF304 1 99.0 Weakly correlated
78 ZNF561 1 43.0 Weakly correlated
79 ZNF563 1 28.9 Weakly correlated
80 ZNF57 1 28.9 Weakly correlated
81 ZNF584 1 99.0 Weakly correlated
82 ZNF333 1 99.0 Weakly correlated
83 ZNF624 1 99.0 Weakly correlated
84 ZNF641 1 99.0 Weakly correlated
85 ZNF649 1 28.9 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 ZNF273 173 28.9 Weakly correlated
2 ZNF519 132 19.6 Weakly correlated
3 ZNF680 126 28.9 Weakly correlated
4 ZNF736 118 43.0 Weakly correlated
5 ZNF263 18 180.0 Weakly correlated
6 ZNF479 14 6.4 Weakly correlated
7 ZNF549 10 87.0 Weakly correlated
8 ZNF483 6 99.0 Weakly correlated
9 ZNF282 5 319.0 Weakly correlated
10 ZNF534 4 19.6 Weakly correlated
11 ZNF793 4 99.0 Weakly correlated
12 ZNF257 3 0.0 Weakly correlated
13 ZNF382 2 99.0 Weakly correlated
14 ZNF780A 2 43.0 Weakly correlated
15 ZNF610 2 28.9 Weakly correlated
16 ZNF320 2 28.9 Weakly correlated
17 ZNF486 1 8.6 Weakly correlated
18 ZNF468 1 28.9 Weakly correlated
19 ZNF91 1 6.0 Weakly correlated
20 ZNF707 1 74.0 Highly correlated
21 ZNF18 1 160.0 Weakly correlated
22 ZFP69B 1 99.0 Weakly correlated
23 ZNF33A 1 99.0 Weakly correlated
24 ZNF17 1 69.0 Moderately correlated
25 ZNF528 1 43.0 Weakly correlated
26 ZNF2 1 99.0 Weakly correlated
27 ZNF561 1 43.0 Weakly correlated
28 ZNF506 1 28.9 Weakly correlated
29 ZNF530 1 28.9 Weakly correlated
30 ZNF317 1 99.0 Weakly correlated
31 ZIM3 1 87.0 Weakly correlated
32 ZIK1 1 87.0 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 ZNF263 180.0 Weakly correlated
2 ZNF273 28.9 Weakly correlated
3 ZNF479 6.4 Weakly correlated
4 ZNF483 99.0 Weakly correlated
5 ZNF519 19.6 Weakly correlated