ZRdb KZFP & Repeats
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LTR_LTR88B

  • Name
    LTR88B
  • Repbase
    LTR88b
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000613
Description :

4 bp TSDs. 3' end matches LTR85, which is tentatively a Gypsy LTR. ~80%similar to both LTR88a and LTR88c. Many CpGs. Middle region least welldefined. Outrageous substitution level (>35% in borEut13) partly due toCpGs.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtagcgggggtcccagcttgagcctaagctgggattcagacatgtctgggcatgtctggcgaactggtggggcgggcccgccagaagcctatttgcatgaggactgaggagcctcctgggagagaactcatcctaagggaagaaggagccaggcacgacgagcttgacccagtaacaaagccttagtcgtcggaggggaggggcgattctgagtacagcgcggtgtctgtcactcggatttgtctcccggcccagcccccactggactcatgtctgagtcctatggagagcgggaggactgtaagtaaaactgaaagagctgtttcactaaaactccgtaagacattggggcacaagcagcactgctttggnacccctctaacagagtgtaacacaaaggggggagagaggcattctcccccacttcgccgcagancgccgcgcagctttggcacctcgagggctccggcgcagcggttcggcgccccgggggactgcggctgggagcancgggagacagcgccctcggcagggacgtcggcgtctcgcggagggcgccggcagcagtggcggcggcgaggcgcccgcctcaagtggctcgcgggcagcggacgtcaacgaggagggccggagcggaagagcaagagcggactcgttgcgagcacatgtgagacaccccctggggactcccagaaatacttgggggagactttgcagggggctgaggtcctgcgtnagcaggtgggggcaagagccagtgaaatttgggttattactgttaatgtgaccccatttgtacccacaggctggtgaggcctggggaaactcgggttaca
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 ZNF382 93 99.0 Highly correlated
2 ZNF263 35 180.0 Weakly correlated
3 ZNF394 27 99.0 Highly correlated
4 ZNF766 24 43.0 Weakly correlated
5 ZFP37 22 99.0 Highly correlated
6 ZNF2 22 99.0 Highly correlated
7 ZNF18 19 160.0 Weakly correlated
8 ZFP69B 15 99.0 Highly correlated
9 ZNF558 13 99.0 Highly correlated
10 ZNF75D 12 94.0 Moderately correlated
11 ZNF324 11 99.0 Highly correlated
12 ZNF793 11 99.0 Highly correlated
13 ZNF101 10 43.0 Weakly correlated
14 ZNF554 10 99.0 Highly correlated
15 ZKSCAN1 9 160.0 Weakly correlated
16 ZIM3 8 87.0 Moderately correlated
17 ZNF534 8 19.6 Weakly correlated
18 ZNF317 7 99.0 Highly correlated
19 ZNF589 7 28.9 Weakly correlated
20 ZNF610 6 28.9 Weakly correlated
21 ZNF479 6 6.4 Weakly correlated
22 ZNF197 6 99.0 Highly correlated
23 ZNF701 6 28.9 Weakly correlated
24 ZNF705B 5 28.9 Weakly correlated
25 ZNF679 5 28.9 Weakly correlated
26 ZNF597 5 94.0 Moderately correlated
27 ZNF680 4 28.9 Weakly correlated
28 ZNF705D 4 28.9 Weakly correlated
29 ZNF490 4 43.0 Weakly correlated
30 ZNF257 4 0.0 Weakly correlated
31 ZNF8 4 99.0 Highly correlated
32 ZNF506 3 28.9 Weakly correlated
33 ZNF735 3 28.9 Weakly correlated
34 ZNF92 3 28.9 Weakly correlated
35 ZFP57 3 87.0 Moderately correlated
36 ZNF141 3 43.0 Weakly correlated
37 ZNF549 2 87.0 Moderately correlated
38 ZNF674 2 99.0 Highly correlated
39 ZNF695 2 28.9 Weakly correlated
40 ZNF175 2 94.0 Moderately correlated
41 ZNF140 2 99.0 Highly correlated
42 ZNF584 2 99.0 Highly correlated
43 ZNF573 2 94.0 Moderately correlated
44 ZNF723 2 15.2 Weakly correlated
45 ZNF274 2 99.0 Highly correlated
46 ZNF284 2 43.0 Weakly correlated
47 ZNF528 2 43.0 Weakly correlated
48 ZFP28 2 99.0 Highly correlated
49 ZKSCAN8 2 160.0 Weakly correlated
50 ZNF429 2 28.9 Weakly correlated
51 ZNF485 2 94.0 Moderately correlated
52 ZKSCAN5 2 160.0 Weakly correlated
53 ZNF471 2 94.0 Moderately correlated
54 ZNF716 1 19.6 Weakly correlated
55 ZNF202 1 160.0 Weakly correlated
56 ZNF189 1 99.0 Highly correlated
57 ZNF84 1 99.0 Highly correlated
58 ZNF823 1 43.0 Weakly correlated
59 ZNF707 1 74.0 Weakly correlated
60 ZNF133 1 99.0 Highly correlated
61 ZNF778 1 74.0 Weakly correlated
62 ZNF730 1 19.6 Weakly correlated
63 ZNF264 1 99.0 Highly correlated
64 ZNF100 1 28.9 Weakly correlated
65 ZNF282 1 319.0 Weakly correlated
66 ZNF425 1 94.0 Moderately correlated
67 ZNF43 1 43.0 Weakly correlated
68 ZNF454 1 99.0 Highly correlated
69 ZNF34 1 99.0 Highly correlated
70 ZNF483 1 99.0 Highly correlated
71 ZNF486 1 8.6 Weakly correlated
72 ZNF320 1 28.9 Weakly correlated
73 ZNF28 1 28.9 Weakly correlated
74 ZNF519 1 19.6 Weakly correlated
75 ZNF641 1 99.0 Highly correlated
76 ZNF565 1 99.0 Highly correlated
77 ZNF585B 1 99.0 Highly correlated
78 ZNF267 1 43.0 Weakly correlated
79 ZNF596 1 94.0 Moderately correlated
80 ZNF417 1 28.9 Weakly correlated
81 ZNF605 1 99.0 Highly correlated
82 ZNF607 1 43.0 Weakly correlated
83 ZNF230 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 ZNF793 6 99.0 Highly correlated
2 ZNF75D 4 94.0 Moderately correlated
3 ZNF263 4 180.0 Weakly correlated
4 ZNF18 3 160.0 Weakly correlated
5 ZNF534 3 19.6 Weakly correlated
6 ZIM3 2 87.0 Moderately correlated
7 ZNF558 2 99.0 Highly correlated
8 ZNF766 2 43.0 Weakly correlated
9 ZNF317 2 99.0 Highly correlated
10 ZNF2 2 99.0 Highly correlated
11 ZNF471 2 94.0 Moderately correlated
12 ZNF189 1 99.0 Highly correlated
13 ZNF674 1 99.0 Highly correlated
14 ZNF573 1 94.0 Moderately correlated
15 ZNF528 1 43.0 Weakly correlated
16 ZNF417 1 28.9 Weakly correlated
17 ZNF679 1 28.9 Weakly correlated
18 ZKSCAN1 1 160.0 Weakly correlated
19 ZNF479 1 6.4 Weakly correlated
20 ZNF282 1 319.0 Weakly correlated
21 ZNF8 1 99.0 Highly correlated
22 ZKSCAN5 1 160.0 Weakly correlated
23 ZFP37 1 99.0 Highly correlated
24 ZNF485 1 94.0 Moderately correlated
25 ZNF701 1 28.9 Weakly correlated
26 ZNF506 1 28.9 Weakly correlated
27 ZNF382 1 99.0 Highly correlated
28 ZNF324 1 99.0 Highly correlated
29 ZNF257 1 0.0 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 ZNF793 99.0 Highly correlated