ZRdb KZFP & Repeats
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LTR_LTR35B

  • Name
    LTR35B
  • Repbase
    LTR35B
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000497
Description :

Represents a diverse set of subfamilies.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgagacagagtagggacgggactcggccccccccgtgccccaccgaggacctctactgcaagctggtgggggggnggccccgtggccggcggggaccccaaccagaccatccagaccttgcaccataaatcttgctcaaggcgccatacccgctgatcgcgggaccttgaagaaactaagataagcagcatcccaccataaatcttactcaagggagttaaccctatcgcccgcatgcgcacaagaccagaagaatgaccgatccttaaccttngcctcattntaatactaaaaatcacgcccaggggtggagatttaanatgctaatgatacatgcgatgtatgaagaagcatgttancnnactgcgcangcgctaaaagntccctgcctctacatgcctaaacgtcactcctttcccacnttagcccctttaaaactaccntnccaactcccctcggggagccagccggagaattctctctctcttgtgctgcctcccttgtgctcgagcataagccccaataaagccttgtctgggaaaacttncttggcctcgtgtcaatttctattgcattgagagcctaagaacctgtggtcggtaaca
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 ZIM3 7 87.0 Weakly correlated
2 ZNF597 6 94.0 Weakly correlated
3 ZNF766 5 43.0 Highly correlated
4 ZNF263 5 180.0 Weakly correlated
5 ZNF382 3 99.0 Weakly correlated
6 ZNF257 2 0.0 Weakly correlated
7 ZNF486 2 8.6 Weakly correlated
8 ZNF485 1 94.0 Weakly correlated
9 ZNF8 1 99.0 Weakly correlated
10 ZNF845 1 28.9 Moderately correlated
11 ZNF679 1 28.9 Moderately correlated
12 ZNF585A 1 99.0 Weakly correlated
13 ZNF534 1 19.6 Weakly correlated
14 ZNF528 1 43.0 Highly correlated
15 ZNF490 1 43.0 Highly correlated
16 ZNF394 1 99.0 Weakly correlated
17 ZNF317 1 99.0 Weakly correlated
18 ZNF251 1 94.0 Weakly correlated
19 ZNF202 1 160.0 Weakly correlated
20 ZNF18 1 160.0 Weakly correlated
21 ZNF133 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 ZIM3 3 87.0 Weakly correlated
2 ZNF257 2 0.0 Weakly correlated
3 ZNF485 1 94.0 Weakly correlated
4 ZNF597 1 94.0 Weakly correlated
5 ZNF534 1 19.6 Weakly correlated
6 ZNF766 1 43.0 Highly correlated
7 ZNF585A 1 99.0 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