ZRdb KZFP & Repeats
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LTR_HERV-FC1

  • Name
    HERV-FC1
  • Repbase
    HERV-Fc1
  • Type
    LTR
  • Emergence
    8.6 Mya
  • Dfam Id
    DF0000176
Description :

Apparently active after the split from orangutan .
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
ttggtgccgaaacccgggaggggacacctcctaagcccccccagaggctcagggggactcccctcctggtcggatcaggcctctccctcagtcaggtcaggcttctcctccacggccatccgtccgtttcgtccggttacttgccgccaggtcgcagctgctgcagctactccagtccaattcggcngacgctgggtgagtacccctcctttttccttttgtccgttcctccctggccgagagtcatgcgcacgcccagggagagtttccttcctcaagggaaggccagtccgggtcaccaggtgacccaagtttacttccccaggggaagtccaaatcggcactgacgactcggagacgtccgtgtctgaagtagccgatccgaggctccaggagccgcgtggtctgagtgaccccagaaggacgcttctgctgtccctcagaccgctgccataaagggaagaggatggggtccacccagtccaaaatcacgcaaaacacccccttagggtgcctcctgcgcaacctcccaactttacaactcgaccaagatttaaaacgaaagcgactaattttcttctgcacggttgcctggccgcaatataccttagacaaccaatctcgctggccccccgaaggcacactcgacttcagtatcctaaacgaccttaccaatttttgtcagaggcgaggcaaatagtcaaaaatcaaatttgttcaaaggttctgggacctccgctctcgtcggaccgctgccgccaagtgttttcgctggcgcaagtccctctggctagccttccccttgaagtctggccagcctctcttgccgttaatcctgtccgcggcccccatcttagtctctccgccgccatctccttctgcaccgccgccatcttactacctgcttcctcaccgccgccatcttacttccttttttctctgccgccattttagttcttctgccgccattcggccgccattttaattcccgttagttcccatttgttcttttaaccctgcccacctaactccttggcttccgtcttacccccattcttatttccacctccccgtagtgccataccagtccactacatctacaactcctaacacattcgctgcgggcagtgatatccgctaatcctggatgaggcagcggagggcccccaaacccctatccaggacttagtaaagctggcgttcaaagtttttaattcccgagaggaggcggctgaggtacaacgacaggcaagactgaaacaaaaagttcagctccaaacccaagccctggcagctgccctgcaaccggcattccctaagagccccggcaggagaggtagaggtacaatctcccgggccccgtctggcgcctgcttcaagtgcggcaactcgggacactgggccagccggtgccctagccaacagcaaccgtcctgcccgccttgcaactgtttcaagtgcggcaatccaggtcattgggcaaaacagtgcccaaaccccaagccgccaacgcgcccgtgccctaactgccaacaaatggggcactggaggtcagactgccccggcctcggagcggccgctgtgtctccacatggcgacccctccccggatggcgaaggtgccctccagctcctccaactggacgacgactgaagaggcccagactcgggaacccctctcacccttgccgagcccagggtaatgcttcaggtagcgggtaagtccatttcctttttgctagacacaagggctacctactctgttttgccatcttttagcaggcccagccgcccctcctcaatctctgttataaggattgatggcactccctccacctaccgccagacgccttcactgccctgccgcctagaccactatataactttcttgaacccataatctaccatccttccctttattccttactaaagcaaatacatcgagttatcttcttactttagtaaacactttctcaggttagattaaagcctgccctaccactcataaaacagcagaggtagtagcttcaaccctcattgaacagataatcccgagatttggcctgcttttatctccaaaatagtcaaacaggtgacaaccacacttggcgttaactggaagctacacactccataccatccgcagtcttctggaaaagtggaacgcgccaacggccttgtcaaacaacacctaatcaaattggctctcgagacgcgccaatcgtgggtaaccttacttccctttgccctcgcgcggctccgggcagcaccccgaagccccacaggccttagcccctttgaactcctatacgggcgccccttcctctttcaagagctccctgtgaataccccacctcttggcacgtacctgccctacctcaccctgttaagggagctgctaagagaacacgccgaccgcagccttccaaagcccggaccgctcagcccagacagtccggccataataaccccaggagatcaggtactagtaaaagacctccaggcaagaggtctctccccccggtggaaaggcccctatacggtaattcttacaacaccgacggcagctaaacttataggccttccctcctggtaccatatttcccatcttaagagggcacctacacaacatcaggccacttggactgtcacctccctctccccaaccaaactgaaactctctaaatcaaataccgcatgaattctccgtgtgacaggctccaacaatttattcaggttcttctcgaggaaagctggtcattccctacttttgctaacacccttcgctggcctgaaaatctgttgtcctatatagacgaactggtgtggcaaggctccctccagaactttcaccaacatgaagttcgctttttttgtcttgtcactcttcttatcttgcacaccagtcgtagtagacaagccccctctcagactccctctcactgggtttttttccctcactgagaattggagttccggacaggcagtctcctctagactagtagccacggcagcatgcccgccagcagggtgccaggcacccatagctttcctaggtctaaaattctcttccctaggcccggctagaaaaaaccctgcactttgcttcctgtatgatcaaagtaactccaaatgcaataccagctgggtcaaagaaaatgtaggctgtccgtggcactggtgcaatatccatgaggcattaattcgtactgaaaaaggatctgacccaatgttctatgtcaatacctccactggaggatgggacggctttaacggatttaacctccaaatctctgacccttgggacccccgctgggcctccggtgtagatggaggactatatgagcacagaacttttatgtatccagtagctaagatccgcattgccaggacccttaaaaccactgtcacagggttatccgacttagcctcctcaatccagtcagccgagaaagagcttgccanccagcttcaaccggcagctgaccaggccaagtcctcccccttctcgtggttaactttaatctcagaaggtgcacaattgctccaatccacaggggtacaaaacctctcccactgcttcctctgtgcagccctcggaagacctcccttagtagcagttcctctccctaccccctttaattatacaagaaattcatccacccctataccaccggtcccgaaaggacaggtcccactattctcagaccctacaagacacaagttcccgttctgttactctaccccaaatgcctcttggtgtaaccagaccaggatgcttaccagcgccccggcaccncccggaggctacttctggtgtaactccacgctaactaaagttcttaactcaactggtaatcacaccttgtgcttacccgtctctctcatccctagcctgaccctatatagtcaggacgaacttagccatctgctagcctggaccgagccaaggccgcgaaataaaagcaaacgggctattttcctacccttagtactaggcatctccttagcctcctccttagtggcatcagggctaggaaaaggagccctcacccactcaatccaaacatctcaagatctgtctactcgcctgcagttggccattgaggcatcggccgagtccctggcctccctacagcgacagatcacttcggtagcacaggtcgcggcacagaacaggcgggccttagacttgcttacggcagaaaaaggagggacgtgtttattcttacaggaagaatgctgctattatctcaacgagtcaggggtagttgagaccaatttacaaactttaaaaaaaaaaaagatccaagaggagttaaaacactcctacgaccctctccgccctggtccttcttggtggttttcacccgtggttcaacagatgctccctttccttatcccaattataattctctgtataataatgtgttttgccccaatcctagtacagtttctccgccagcggatacaagaaatcaccagggtcgctttcaaccagatgttacttcacccctacgtccaactgccaacctctgatttaggccccctccccaacgacgccccttaacagcaggaagtagccagacgatttcgtcgccccttttctataaccaaaaagaggttggac
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 ZFP57 4 87.0 Weakly correlated
2 ZKSCAN8 3 160.0 Weakly correlated
3 ZNF766 3 43.0 Weakly correlated
4 ZNF175 2 94.0 Weakly correlated
5 ZNF197 2 99.0 Weakly correlated
6 ZNF584 2 99.0 Weakly correlated
7 ZNF589 2 28.9 Weakly correlated
8 ZNF18 1 160.0 Weakly correlated
9 ZNF479 1 6.4 Moderately correlated
10 ZNF534 1 19.6 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 ZFP57 1 87.0 Weakly correlated
2 ZNF534 1 19.6 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