ZRdb KZFP & Repeats
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LTR_LTR103_MAM

  • Name
    LTR103_MAM
  • Repbase
    No find
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000379
Description :

The tentative classification of LTR103_Mam is based on the 4 bp TSDs aswell as familiar LTR termini. The substitution level found in theLaurasiatherian reconstruction is ~36%.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtgacgggacaaaaattattaacgtatgagtgttcccagcctttcccctccccctgcccgctaaagaggattctggctttgcccgctcggtttcttcccctccctcgccctccgaggagggttctgcctttgccagaccggttctttgggcttttgtgatgcagaatcgggaggaagggggagggagagaggaacaggagatgcgggggctaggactgggggaggagctttttaggaggntttcgggggagggtcggaggagcagctgcggngtgtgagggaagtggatgggagaggaaaggggattttaagaagtattgctgtggnctatgtatccccttcacggtgttcgagaaatgcaagtaaagaacttgagttattttgaaattacttttggttgctggactgtgtttctttgaccgcgacaccgctctgagactggaccacgtgggtcacggctttataagggttaca
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 ZNF766 7 43.0 Weakly correlated
3 ZNF534 6 19.6 Weakly correlated
4 ZNF394 6 99.0 Highly correlated
5 ZNF101 4 43.0 Weakly correlated
6 ZNF680 4 28.9 Weakly correlated
7 ZNF75D 4 94.0 Moderately correlated
8 ZNF705B 4 28.9 Weakly correlated
9 ZNF705D 4 28.9 Weakly correlated
10 ZIM3 3 87.0 Moderately correlated
11 ZNF589 3 28.9 Weakly correlated
12 ZNF597 3 94.0 Moderately correlated
13 ZNF554 3 99.0 Highly correlated
14 ZNF528 3 43.0 Weakly correlated
15 ZNF30 3 94.0 Moderately correlated
16 ZNF284 3 43.0 Weakly correlated
17 ZNF257 3 0.0 Weakly correlated
18 ZFP37 3 99.0 Highly correlated
19 ZKSCAN1 3 160.0 Weakly correlated
20 ZNF274 2 99.0 Highly correlated
21 ZNF175 2 94.0 Moderately correlated
22 ZNF479 2 6.4 Weakly correlated
23 ZNF723 1 15.2 Weakly correlated
24 ZNF679 1 28.9 Weakly correlated
25 ZNF665 1 28.9 Weakly correlated
26 ZNF610 1 28.9 Weakly correlated
27 ZNF793 1 99.0 Highly correlated
28 ZNF816 1 28.9 Weakly correlated
29 ZNF878 1 43.0 Weakly correlated
30 ZNF585A 1 99.0 Highly correlated
31 ZNF584 1 99.0 Highly correlated
32 ZNF582 1 99.0 Highly correlated
33 ZNF566 1 99.0 Highly correlated
34 ZNF519 1 19.6 Weakly correlated
35 ZNF506 1 28.9 Weakly correlated
36 ZNF441 1 43.0 Weakly correlated
37 ZNF425 1 94.0 Moderately correlated
38 ZNF343 1 74.0 Weakly correlated
39 ZNF2 1 99.0 Highly correlated
40 ZNF282 1 319.0 Weakly correlated
41 ZNF263 1 180.0 Weakly correlated
42 ZNF18 1 160.0 Weakly correlated
43 ZNF169 1 94.0 Moderately correlated
44 ZNF141 1 43.0 Weakly correlated
45 ZKSCAN5 1 160.0 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 ZIM3 2 87.0 Moderately correlated
2 ZNF479 2 6.4 Weakly correlated
3 ZNF30 2 94.0 Moderately correlated
4 ZNF534 2 19.6 Weakly correlated
5 ZNF257 2 0.0 Weakly correlated
6 ZKSCAN5 1 160.0 Weakly correlated
7 ZNF816 1 28.9 Weakly correlated
8 ZNF528 1 43.0 Weakly correlated
9 ZNF589 1 28.9 Weakly correlated
10 ZNF793 1 99.0 Highly correlated
11 ZNF75D 1 94.0 Moderately correlated
12 ZNF680 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