ZRdb KZFP & Repeats
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LTR_LTR103B_MAM

  • Name
    LTR103B_MAM
  • Repbase
    No find
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000378
Description :

LTR103b_Mam appears to have 4 bp TSDs and represents one of the(probably many) distantly-related LTR103_Mam variants. The centralregion (~180-360) is quite purine-rich; the variability of this regionmay not be optimally captured in this model.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtgacagggacaaaaatattaaagtataagtattcacagcctttcccctccccctgccttctaaggaggagttctcgtttcgtccgctcggctcctgggcctttgttgtgctgatcggggtaatgggtggagaggcagaactgaaagaagccgagaagagctaaattgatctacataagaaaaggccaggaggcgnctaggggaggaggnatagaancagggaggaggngagaggganncggagggagaaggaggggnagctggggngaggatttgaganggggtggagagggagagaggtggagcagctgccgtgaggagtggaactttggggaaagagagagatgtttaaagaggatttttaggaagttttgctgtgtgntgtgcgatgtaacccccttctccgcctccccaagaaaccttcagtaaagatctacattacttttcaangcttttggagtcggatttgtgtttcttttggatgtgacaccgtgctgagactggcctcaaggcgggagcgagaaggcccagttttattcgggttaca
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 12 99.0 Highly correlated
2 ZIM3 11 87.0 Moderately correlated
3 ZNF263 10 180.0 Weakly correlated
4 ZNF766 6 43.0 Weakly correlated
5 ZNF394 6 99.0 Highly correlated
6 ZNF705B 6 28.9 Weakly correlated
7 ZNF2 5 99.0 Highly correlated
8 ZNF680 4 28.9 Weakly correlated
9 ZNF485 4 94.0 Moderately correlated
10 ZNF723 4 15.2 Weakly correlated
11 ZNF597 3 94.0 Moderately correlated
12 ZNF589 3 28.9 Weakly correlated
13 ZNF534 3 19.6 Weakly correlated
14 ZNF425 3 94.0 Moderately correlated
15 ZNF75D 3 94.0 Moderately correlated
16 ZNF324 3 99.0 Highly correlated
17 ZFP37 3 99.0 Highly correlated
18 ZNF257 3 0.0 Weakly correlated
19 ZFP69B 3 99.0 Highly correlated
20 ZNF18 3 160.0 Weakly correlated
21 ZNF175 2 94.0 Moderately correlated
22 ZNF610 2 28.9 Weakly correlated
23 ZNF101 2 43.0 Weakly correlated
24 ZNF584 2 99.0 Highly correlated
25 ZNF479 2 6.4 Weakly correlated
26 ZNF169 2 94.0 Moderately correlated
27 ZNF331 2 94.0 Moderately correlated
28 ZFP28 2 99.0 Highly correlated
29 ZNF273 2 28.9 Weakly correlated
30 ZNF736 1 43.0 Weakly correlated
31 ZFP57 1 87.0 Moderately correlated
32 ZNF554 1 99.0 Highly correlated
33 ZNF707 1 74.0 Weakly correlated
34 ZNF780A 1 43.0 Weakly correlated
35 ZNF705D 1 28.9 Weakly correlated
36 ZIK1 1 87.0 Moderately correlated
37 ZNF701 1 28.9 Weakly correlated
38 ZNF816 1 28.9 Weakly correlated
39 ZKSCAN1 1 160.0 Weakly correlated
40 ZNF823 1 43.0 Weakly correlated
41 ZNF679 1 28.9 Weakly correlated
42 ZNF92 1 28.9 Weakly correlated
43 ZKSCAN8 1 160.0 Weakly correlated
44 ZNF558 1 99.0 Highly correlated
45 ZNF136 1 74.0 Weakly correlated
46 ZNF528 1 43.0 Weakly correlated
47 ZNF140 1 99.0 Highly correlated
48 ZNF471 1 94.0 Moderately correlated
49 ZNF182 1 99.0 Highly correlated
50 ZNF347 1 43.0 Weakly correlated
51 ZNF320 1 28.9 Weakly correlated
52 ZNF317 1 99.0 Highly correlated
53 ZNF197 1 99.0 Highly correlated
54 ZNF28 1 28.9 Weakly correlated
55 ZNF284 1 43.0 Weakly correlated
56 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 ZIM3 3 87.0 Moderately correlated
2 ZNF257 2 0.0 Weakly correlated
3 ZNF723 2 15.2 Weakly correlated
4 ZNF263 2 180.0 Weakly correlated
5 ZNF680 2 28.9 Weakly correlated
6 ZNF534 2 19.6 Weakly correlated
7 ZNF479 2 6.4 Weakly correlated
8 ZNF485 2 94.0 Moderately correlated
9 ZNF780A 1 43.0 Weakly correlated
10 ZNF347 1 43.0 Weakly correlated
11 ZNF2 1 99.0 Highly correlated
12 ZNF816 1 28.9 Weakly correlated
13 ZNF382 1 99.0 Highly correlated
14 ZNF18 1 160.0 Weakly correlated
15 ZNF597 1 94.0 Moderately correlated
16 ZNF28 1 28.9 Weakly correlated
17 ZNF92 1 28.9 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