ZRdb KZFP & Repeats
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LTR_HERV1_LTRE

  • Name
    HERV1_LTRE
  • Repbase
    No find
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000168
Description :

HERV1_LTRe represents a mixture of low copy number subfamilies, probablyall <10% diverged.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgaagtaggaaattaggaaaataacagaataatggcanaagtaataatagcgaaagtnatagtaatagaaanataataatagttcatagaatgaattgctgtnttaacctaggctgaaaaggctttaggtagcgcacccccaccccccccgaagtnagagttaagaaagaatattaactgcctctctgtgaaacattaaccatatctctcccccgcatattttgtaagttctgtaagttcctgtttttcttgctgtgcagctgcaaggtcacaagatagataagcgtaagctgcaagacatgttttccctaagatgtaagactcatgtcacatgatgattaactgcttttgttctcgcttctgtaagcctgcttcctgcntcacgtanttcccgcctcaagatgcntaaaaggcgcttgccttctttgttcggtgctcagactttcaggacgcatgtccgctgagccggtgtacaccttaaaataaanccctcctgnaccccnatcggtctctccggttccctgatttcccgctaca
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 17 43.0 Highly correlated
2 ZNF589 14 28.9 Moderately correlated
3 ZNF197 12 99.0 Weakly correlated
4 ZKSCAN8 10 160.0 Weakly correlated
5 ZNF175 10 94.0 Weakly correlated
6 ZNF584 9 99.0 Weakly correlated
7 ZNF845 6 28.9 Moderately correlated
8 ZKSCAN1 4 160.0 Weakly correlated
9 ZNF274 3 99.0 Weakly correlated
10 ZNF18 3 160.0 Weakly correlated
11 ZNF324 2 99.0 Weakly correlated
12 ZNF506 2 28.9 Moderately correlated
13 ZNF320 1 28.9 Moderately correlated
14 ZNF528 1 43.0 Highly correlated
15 ZNF558 1 99.0 Weakly correlated
16 ZNF317 1 99.0 Weakly correlated
17 ZNF701 1 28.9 Moderately correlated
18 ZIM3 1 87.0 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 ZNF175 4 94.0 Weakly correlated
2 ZNF197 4 99.0 Weakly correlated
3 ZNF589 4 28.9 Moderately correlated
4 ZNF584 3 99.0 Weakly correlated
5 ZIM3 1 87.0 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