ZRdb KZFP & Repeats
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LTR_LTR1C

  • Name
    LTR1C
  • Repbase
    LTR1C
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000440
Description :

Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgatacagaagggctgggctcccggctaaaccccacccttaagcctggaaccgcggccctaagtgaaaacagctgaccccgtttttccgcccaaatgttgcctttttggcctgccccgcccctatcctgtgcccataaaagacttcagctggcagagcaacacaagcggctgagcgtcgaggatacaagcggctgagcggcgagcagagaagcaactgagcgtcggagactacggatagacgcggctaacttcagacggtgcggcttcggagaggggcccggccggagacggccgggcttcagggaaagatcaccttcccatcccctttccagcctccctttccgctgagagccacccaccgctcaataaagtcttccgcattcatcacctttcaaacagttcgtgtgacctgattcttcctggacgccggacaagaacccgggtgccgagagggcaggggctgccaccctgaccctccactgagctggttggcacttggccgtccccggacggcagagctgaaagagcattggttgtaacacgcttggacgctgctgcggggcccgcacagagcctgctcccgccagagaggagcgaccggccggttccagcgttcgttcgctccggttcccgcactcgctcgctcgcacgctccctcccgcgaggagtggccagcggcgggctgagtgaaacgagccactccagttcccgcccgcgaagggggtcaagggaactatcccgtctca
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 ZNF680 63 28.9 Moderately correlated
2 ZNF347 16 43.0 Highly correlated
3 ZNF257 2 0.0 Weakly correlated
4 ZNF263 2 180.0 Weakly correlated
5 ZIM3 1 87.0 Weakly correlated
6 ZNF519 1 19.6 Weakly correlated
7 ZNF534 1 19.6 Weakly correlated
8 ZNF589 1 28.9 Moderately correlated
9 ZNF701 1 28.9 Moderately correlated
10 ZNF705D 1 28.9 Moderately correlated
11 ZNF793 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 ZNF680 25 28.9 Moderately correlated
2 ZNF347 16 43.0 Highly correlated
3 ZNF257 1 0.0 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
1 ZNF347 43.0 Highly correlated