ZRdb KZFP & Repeats
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LTR_LTR90B

  • Name
    LTR90B
  • Repbase
    LTR90B
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000620
Description :

35% subst level in borEut13. Unclear TSDs, but perhaps 5 bp.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgttagaaattttatgtggagtctggggctgagagctgggggtcaggatctggaatttgngatctaaagatcctagatcccgcttcctacagtacacccagaccaagattgatggaaccaggtagctcgcttancnaagcgagggccatccagccttccagtttctggatgaaattgagaagggtaatanatttggaaaacagaatggantccatcccngaataaccaaattaanccttctttaatgattgagaacantatgtatncaagatccaaaccaatctcaagaattaatcaacaaaaggnacaggagtttcagctatacaaaataaactaacaggatttgaaatgcaggcaatcctattttacagtaaaaaccaaggaaaacacagattttaatccaggttctagttcatncctggctcnnaganagagagttctncgagcatatgcgnaagaacgntcggacgtaaaaaggagcaaagaaacaggaagtcccgcacaagaactctaagaggaaggcggngnttctctcttgcccgatcagcgttggctccnaggaaccanagaaaacacggagaaagcggaaaagatcgatttgncctcgttgacacctcgttgacacttcattaagaagagtcagttcttggtacttgaggttttcccagaagatggaatatttctttccccttaaattcacatatgctgcccagaagcccccgggcttcctggaatttttattaagaattccagatattccagcaataattttcagacaccacagcttctgctaaca
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 6 99.0 Highly correlated
2 ZIM3 5 87.0 Moderately correlated
3 ZNF723 3 15.2 Weakly correlated
4 ZNF528 3 43.0 Weakly correlated
5 ZNF175 3 94.0 Moderately correlated
6 ZNF263 3 180.0 Weakly correlated
7 ZNF75D 2 94.0 Moderately correlated
8 ZNF584 2 99.0 Highly correlated
9 ZKSCAN1 2 160.0 Weakly correlated
10 ZNF28 1 28.9 Weakly correlated
11 ZNF2 1 99.0 Highly correlated
12 ZNF317 1 99.0 Highly correlated
13 ZNF257 1 0.0 Weakly correlated
14 ZNF394 1 99.0 Highly correlated
15 ZNF429 1 28.9 Weakly correlated
16 ZNF10 1 99.0 Highly correlated
17 ZNF101 1 43.0 Weakly correlated
18 ZNF589 1 28.9 Weakly correlated
19 ZNF679 1 28.9 Weakly correlated
20 ZNF705D 1 28.9 Weakly correlated
21 ZFP37 1 99.0 Highly 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 ZFP37 1 99.0 Highly correlated
2 ZNF10 1 99.0 Highly correlated
3 ZNF528 1 43.0 Weakly correlated
4 ZNF429 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