ZRdb KZFP & Repeats
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LTR_MER54B

  • Name
    MER54B
  • Repbase
    MER54B
  • Type
    LTR
  • Emergence
    87.0 Mya
  • Dfam Id
    DF0000861
Description :

MER54B has 5 bp TSDs. The orientation has been reversed from theoriginal. It belongs to a group also including MER73, MER74, MER88 andLTR53. Note that MER stands for MEdium Reiteration frequencyinterspersed repeat. As such, MERs as a group are a grab bag of DNAtransposons and retrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtagtgaattcttataattttatgttgcctcggcatccattttgaatacaagtttaactttctcataccagaagcagggctcagtcacccttgacacagtttccagttctacaccacacccaaatggctcaagccggtggccagagataagaacttagaggcatctctcccgcctagcagactgggctccccgctttcccgccgcttcctttaaacggaccattcaggcatttgcccgcgaacttaaagtgacccacaccctattcccttatatatactgctagttgccatgtcctctctctgcctgactcttcattcctgcctcgcgtgacccggggacggaggactgccctcccgactcattgcgccctccctgcccaggatctgtaagtaaaaatctttgaacttgtttcctattgtggtggtgtattgaatttgcgccttccatctgaagaaccaggggctgccccaggccgggttttccccgggacgccggggagaacacaaggtcgggctcccagcgccagagcgatggtcaggcaggcataaactggacacgggtcagacaagagccacaagggcgtctgccagtataaacaagtttcccgtgtgagggaccccctggtcacgggtcggacaactaggcattaggccgtccgccaggtaaaagaagtatcccgtgaaaggcacactgtaaacacccacgtccagctccccttcatttcccgttagggcagggttgctagccgctctggtactggaaccccaatttagctgggggctctcaaaaca
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 ZNF766 47 43.0 Weakly correlated
2 ZNF382 33 99.0 Weakly correlated
3 ZNF589 30 28.9 Weakly correlated
4 ZNF175 30 94.0 Weakly correlated
5 ZKSCAN8 27 160.0 Weakly correlated
6 ZNF584 22 99.0 Weakly correlated
7 ZKSCAN1 19 160.0 Weakly correlated
8 ZNF197 17 99.0 Weakly correlated
9 ZFP37 12 99.0 Weakly correlated
10 ZNF490 11 43.0 Weakly correlated
11 ZNF394 11 99.0 Weakly correlated
12 ZNF320 11 28.9 Weakly correlated
13 ZFP69B 10 99.0 Weakly correlated
14 ZNF18 10 160.0 Weakly correlated
15 ZNF558 8 99.0 Weakly correlated
16 ZNF263 7 180.0 Weakly correlated
17 ZNF2 7 99.0 Weakly correlated
18 ZNF324 6 99.0 Weakly correlated
19 ZNF679 5 28.9 Weakly correlated
20 ZNF705B 5 28.9 Weakly correlated
21 ZNF554 5 99.0 Weakly correlated
22 ZNF793 5 99.0 Weakly correlated
23 ZNF792 5 94.0 Weakly correlated
24 ZIM3 5 87.0 Highly correlated
25 ZNF701 4 28.9 Weakly correlated
26 ZNF169 4 94.0 Weakly correlated
27 ZNF610 4 28.9 Weakly correlated
28 ZNF707 3 74.0 Moderately correlated
29 ZNF705D 3 28.9 Weakly correlated
30 ZNF506 3 28.9 Weakly correlated
31 ZNF75D 3 94.0 Weakly correlated
32 ZNF101 3 43.0 Weakly correlated
33 ZNF479 3 6.4 Weakly correlated
34 ZNF8 3 99.0 Weakly correlated
35 ZNF251 3 94.0 Weakly correlated
36 ZNF274 3 99.0 Weakly correlated
37 ZNF547 2 74.0 Moderately correlated
38 ZNF441 2 43.0 Weakly correlated
39 ZNF317 2 99.0 Weakly correlated
40 ZNF680 2 28.9 Weakly correlated
41 ZNF789 1 99.0 Weakly correlated
42 ZNF92 1 28.9 Weakly correlated
43 ZNF735 1 28.9 Weakly correlated
44 ZNF723 1 15.2 Weakly correlated
45 ZNF816 1 28.9 Weakly correlated
46 ZNF695 1 28.9 Weakly correlated
47 ZNF682 1 28.9 Weakly correlated
48 ZNF677 1 99.0 Weakly correlated
49 ZNF675 1 8.6 Weakly correlated
50 ZNF641 1 99.0 Weakly correlated
51 ZNF616 1 43.0 Weakly correlated
52 ZNF613 1 99.0 Weakly correlated
53 ZNF534 1 19.6 Weakly correlated
54 ZNF486 1 8.6 Weakly correlated
55 ZNF468 1 28.9 Weakly correlated
56 ZNF433 1 43.0 Weakly correlated
57 ZNF337 1 43.0 Weakly correlated
58 ZNF284 1 43.0 Weakly correlated
59 ZNF224 1 69.0 Weakly correlated
60 ZNF133 1 99.0 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 ZNF584 12 99.0 Weakly correlated
2 ZNF589 11 28.9 Weakly correlated
3 ZNF175 10 94.0 Weakly correlated
4 ZNF197 9 99.0 Weakly correlated
5 ZNF320 5 28.9 Weakly correlated
6 ZNF793 4 99.0 Weakly correlated
7 ZNF701 3 28.9 Weakly correlated
8 ZNF766 3 43.0 Weakly correlated
9 ZNF506 3 28.9 Weakly correlated
10 ZNF705D 2 28.9 Weakly correlated
11 ZNF169 2 94.0 Weakly correlated
12 ZNF705B 2 28.9 Weakly correlated
13 ZNF263 2 180.0 Weakly correlated
14 ZNF479 2 6.4 Weakly correlated
15 ZKSCAN8 2 160.0 Weakly correlated
16 ZNF468 1 28.9 Weakly correlated
17 ZNF554 1 99.0 Weakly correlated
18 ZNF75D 1 94.0 Weakly correlated
19 ZNF679 1 28.9 Weakly correlated
20 ZNF707 1 74.0 Moderately correlated
21 ZNF610 1 28.9 Weakly correlated
22 ZNF2 1 99.0 Weakly correlated
23 ZNF735 1 28.9 Weakly correlated
24 ZNF675 1 8.6 Weakly correlated
25 ZNF680 1 28.9 Weakly correlated
26 ZIM3 1 87.0 Highly 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 ZNF175 94.0 Weakly correlated
2 ZNF197 99.0 Weakly correlated
3 ZNF584 99.0 Weakly correlated
4 ZNF589 28.9 Weakly correlated