ZRdb KZFP & Repeats
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LTR_LTR30

  • Name
    LTR30
  • Repbase
    LTR30
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000486
Description :

There are at least two subfamilies of LTR30 family. Putative 4 bp TSD.LTR30 sequences belong to the endogenous retrovirus HERV30, related tothe HERV9 and HERV17.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgagaggaggtgccagctgggcttcctgggtcgagtaggggctcagaaagctgtgaaactcactcatttcctgcatcaggacttacttcggtcctggatgaataatattgaagatatatgcttaaaatattcctaacaccaggatttgtgcatgtgttttcttccccaagaaagctataaacagcgaaaattttgctgtaagcttccctgtgtcctnctctccctctctcccttccccctcccccgaaactaaagtaaaaggaatgttaantgcccgttnntttctgtgaccagcggaccttatctatgctcccaattccaattccttgtaaacatactttgtaaagtcctgtgagatcctgtctcctttgccatgccgctgcaaggtcataaagtagataaaacctaagttgcaattccggttttcctcaagatctaagacatgtcacaaaataatttactgcctttgtttctcgctctggtaacatcttcccgccgcacgtatttcccgccttaaagagtttaaaaggcgatcgnataaatctaacactggctacccgctcgggaccccttccacgctgtggaagctttgtactgtcactctgctcaataaagcctacagctttttttctctctcggtccgatccgtgtctctcactcgccgcgggcagccgccacaccaattctttggcgtggctaaggcaagaaccttnggcgttaca
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 ZNF705B 12 28.9 Highly correlated
2 ZFP57 10 87.0 Weakly correlated
3 ZNF705D 10 28.9 Highly correlated
4 ZNF589 7 28.9 Highly correlated
5 ZNF766 5 43.0 Weakly correlated
6 ZNF273 5 28.9 Highly correlated
7 ZNF534 5 19.6 Moderately correlated
8 ZNF679 5 28.9 Highly correlated
9 ZNF175 3 94.0 Weakly correlated
10 ZKSCAN8 3 160.0 Weakly correlated
11 ZKSCAN1 3 160.0 Weakly correlated
12 ZNF28 3 28.9 Highly correlated
13 ZNF610 2 28.9 Highly correlated
14 ZNF584 2 99.0 Weakly correlated
15 ZNF519 2 19.6 Moderately correlated
16 ZNF695 2 28.9 Highly correlated
17 ZNF669 2 43.0 Weakly correlated
18 ZNF680 2 28.9 Highly correlated
19 ZNF786 2 99.0 Weakly correlated
20 ZNF793 2 99.0 Weakly correlated
21 ZNF382 2 99.0 Weakly correlated
22 ZNF2 2 99.0 Weakly correlated
23 ZNF197 2 99.0 Weakly correlated
24 ZNF18 2 160.0 Weakly correlated
25 ZIM3 2 87.0 Weakly correlated
26 ZNF701 1 28.9 Highly correlated
27 ZNF81 1 99.0 Weakly correlated
28 ZNF878 1 43.0 Weakly correlated
29 ZFP37 1 99.0 Weakly correlated
30 ZNF91 1 6.0 Weakly correlated
31 ZNF510 1 99.0 Weakly correlated
32 ZNF490 1 43.0 Weakly correlated
33 ZNF486 1 8.6 Weakly correlated
34 ZNF479 1 6.4 Weakly correlated
35 ZNF425 1 94.0 Weakly correlated
36 ZNF394 1 99.0 Weakly correlated
37 ZNF383 1 99.0 Weakly correlated
38 ZNF263 1 180.0 Weakly correlated
39 ZNF101 1 43.0 Weakly correlated
40 ZFP69B 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 ZNF705D 9 28.9 Highly correlated
2 ZNF705B 8 28.9 Highly correlated
3 ZNF273 5 28.9 Highly correlated
4 ZFP57 4 87.0 Weakly correlated
5 ZNF534 4 19.6 Moderately correlated
6 ZNF101 1 43.0 Weakly correlated
7 ZNF766 1 43.0 Weakly correlated
8 ZNF679 1 28.9 Highly correlated
9 ZNF786 1 99.0 Weakly correlated
10 ZNF175 1 94.0 Weakly correlated
11 ZNF589 1 28.9 Highly correlated
12 ZNF701 1 28.9 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 ZNF705D 28.9 Highly correlated