ZRdb KZFP & Repeats
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LTR_MER4D0

  • Name
    MER4D0
  • Repbase
    MER4D
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0000802
Description :

MER4D0 LTR is a ~192 bp insertion variant with respect to MER4B. 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. :
tgtaaaccaaaaataaaattctaagccccccaaccgactgaatggacccccctcttggccaaggggatcccaaagaaacctgaaaaactagttcaggccatgacgggaaggggggggtcggacatgcctcattataccctcctccctttggagtttaggcacaactgaccagcattaacattaaaacagagatcttaagactgacaaaacagactctttgtagcaataagataccaaattccaacctgactctggtatagcatcacatgacagatagcaggccctgaaggaaatcaaagtattttaccccaaaatatatttctttgacatattttgaaatggccctgcaaagctgtctcttgtgggggaaatttgcattctgtagagaatctccttcccttactaggtcttttccggagagtctgacaccttttaaggtccgataagagacattcaccatctattctctctgaagcctgctacctggaggcttcatctacatgacaagaaccttggcttccacaaccccccttatcttaactcaagctgacttcaactcttcaggcagagcttaactctttcaaccaattgccaatcaggaaatctttgaatccacctatgacctggaagcccccgcttcgagatgtcccgcctttccgggccgaaccaatgtataccttacatgtattgatttatgtctttgcctgtaacttctgtctccctaaaatgtataaaaccaagctgtaacccaaccaccttgggcacatgttctcaggacctcctgaggctgtgtcacgggccatggtccttaaccttggcaaaataaacctctaaattgattgagacctgtctcagatactttttggtttaca
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 46 43.0 Weakly correlated
2 ZNF695 8 28.9 Weakly correlated
3 ZNF680 8 28.9 Weakly correlated
4 ZNF382 8 99.0 Weakly correlated
5 ZIM3 7 87.0 Weakly correlated
6 ZNF701 5 28.9 Weakly correlated
7 ZNF589 5 28.9 Weakly correlated
8 ZNF528 5 43.0 Weakly correlated
9 ZNF679 4 28.9 Weakly correlated
10 ZNF506 4 28.9 Weakly correlated
11 ZNF394 4 99.0 Weakly correlated
12 ZNF175 3 94.0 Weakly correlated
13 ZNF707 3 74.0 Highly correlated
14 ZNF2 3 99.0 Weakly correlated
15 ZFP37 2 99.0 Weakly correlated
16 ZNF723 2 15.2 Weakly correlated
17 ZNF317 2 99.0 Weakly correlated
18 ZNF197 2 99.0 Weakly correlated
19 ZNF263 2 180.0 Weakly correlated
20 ZNF26 1 99.0 Weakly correlated
21 ZNF92 1 28.9 Weakly correlated
22 ZNF823 1 43.0 Weakly correlated
23 ZNF81 1 99.0 Weakly correlated
24 ZFP30 1 99.0 Weakly correlated
25 ZNF735 1 28.9 Weakly correlated
26 ZKSCAN8 1 160.0 Weakly correlated
27 ZNF17 1 69.0 Moderately correlated
28 ZNF705D 1 28.9 Weakly correlated
29 ZNF705B 1 28.9 Weakly correlated
30 ZNF257 1 0.0 Weakly correlated
31 ZNF468 1 28.9 Weakly correlated
32 ZNF610 1 28.9 Weakly correlated
33 ZNF273 1 28.9 Weakly correlated
34 ZNF564 1 74.0 Highly correlated
35 ZNF554 1 99.0 Weakly correlated
36 ZNF547 1 74.0 Highly correlated
37 ZNF534 1 19.6 Weakly correlated
38 ZNF324 1 99.0 Weakly correlated
39 ZNF490 1 43.0 Weakly correlated
40 ZNF486 1 8.6 Weakly correlated
41 ZNF479 1 6.4 Weakly correlated
42 ZNF471 1 94.0 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 ZNF766 25 43.0 Weakly correlated
2 ZNF528 3 43.0 Weakly correlated
3 ZIM3 2 87.0 Weakly correlated
4 ZNF695 2 28.9 Weakly correlated
5 ZFP37 1 99.0 Weakly correlated
6 ZNF317 1 99.0 Weakly correlated
7 ZNF723 1 15.2 Weakly correlated
8 ZNF263 1 180.0 Weakly correlated
9 ZNF382 1 99.0 Weakly correlated
10 ZNF479 1 6.4 Weakly correlated
11 ZNF680 1 28.9 Weakly correlated
12 ZNF735 1 28.9 Weakly correlated
13 ZNF707 1 74.0 Highly correlated
14 ZNF468 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