ZRdb KZFP & Repeats
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LTR_LTR1F2

  • Name
    LTR1F2
  • Repbase
    LTR1F2
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000448
Description :

Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgatacggacaggaggcagggaaatactgggtagaagagggcggngtccccggcgagggccccaccctcaagcctggacccgcggccctaaatgagaacnnncatccctgttttcccgcccgaatgttgctttttccaaaaccaccctggcccgccacgccccccatcctgtacccataaaaaccccaaactccactggcagaggagcagagcggcgcggcagagaaggagagaagagaagaagcgtctgaacgtcgagaggagttcggctggggacggtcggagaggagttcggccggggacggccgaactccaggggaagattatcttcccactccatcccctttccagctccccatcccgctgagagccacctccatcgctcaataaaacctccgcattcaccatccttcaagtccgtgtgacctgattcttcctggacgccggacaagaacccgggtaccaagagggcagggtgtaaaaggctgtcaccctgactctccactgagctggttaacacttagccgtccgcggacggcaactgctaaaagagcattaattgtaacacacccctagacgctgccgtggggccggagcccaaaagcgctcgccccggccccggcacccgctcgcctgcgtgctccccctcccgcaaggggtttgagcgcggcggccgagtaagcgagccacacccctgtcgcaagtcccgcgaaggggtcaagggaactctcccgtctca
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 ZNF347 98 43.0 Highly correlated
2 ZNF680 81 28.9 Moderately correlated
3 ZNF263 3 180.0 Weakly correlated
4 ZNF479 3 6.4 Weakly correlated
5 ZNF92 2 28.9 Moderately correlated
6 ZNF468 2 28.9 Moderately correlated
7 ZNF701 2 28.9 Moderately correlated
8 ZNF559 1 74.0 Weakly correlated
9 ZNF878 1 43.0 Highly correlated
10 ZNF786 1 99.0 Weakly correlated
11 ZNF75D 1 94.0 Weakly correlated
12 ZNF736 1 43.0 Highly correlated
13 ZNF723 1 15.2 Weakly correlated
14 ZNF677 1 99.0 Weakly correlated
15 ZNF669 1 43.0 Highly correlated
16 ZIM3 1 87.0 Weakly correlated
17 ZNF506 1 28.9 Moderately correlated
18 ZNF486 1 8.6 Weakly correlated
19 ZNF485 1 94.0 Weakly correlated
20 ZNF334 1 99.0 Weakly correlated
21 ZNF28 1 28.9 Moderately correlated
22 ZNF257 1 0.0 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 ZNF347 91 43.0 Highly correlated
2 ZNF680 28 28.9 Moderately correlated
3 ZNF263 2 180.0 Weakly correlated
4 ZNF479 2 6.4 Weakly correlated
5 ZNF468 2 28.9 Moderately correlated
6 ZNF257 1 0.0 Weakly correlated
7 ZNF75D 1 94.0 Weakly correlated
8 ZNF28 1 28.9 Moderately correlated
9 ZNF334 1 99.0 Weakly correlated
10 ZNF736 1 43.0 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 ZNF347 43.0 Highly correlated
2 ZNF680 28.9 Moderately correlated