ZRdb KZFP & Repeats
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LTR_HERVL66

  • Name
    HERVL66
  • Repbase
    HERVL66I
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000202
Description :

HERVL66 is flanked by the long terminal repeat LTR66. The vast numberof HERVL66 copies have multiplied non-autonomously (multiple copiescontain deletions in coding regions and stop codons at the samepositions). HERVL66 encodes dUTPase and envelope proteins. However, thereverse transcriptase is truncated at the N-terminus; and Gag isdeleted. Only a single instance appears to preserves these two regions.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tttttggcgtcacgaacaggattcgaaaacaaaagcgtgccacttttcggccgcaaggacagggctggaggctcggggacttcccatatcccgggatgggaactcccccagttctcccccttggcgattgaatggtccaggggaactggcctttgtgagaattgggaatctaaattagtgcaatttaaacctttggctgtgcgtgaagtgctgcaggggattccagtcggcaaaggagatgctgagggaatctcccggngtggatggtgcttgcttactgcttataagttaatgtgtcaagataggggctggttgctacaagagaaatgtaagctggaaaaggaaaatgctaatctgacttccagactggccctggcccaatgccaggcctatgtcttgactgatcaggctcaaagctatcagcctattgctgaaaaaagcagctgtccgagtggcccggtcagggtaaaactgaagaactagtcagccggggcttggagcaggtaaaaacccagctcctatctcaaggatgggaaattaaccctagtaaaattcaaggacctgcacaaactgtaaaattccttggcatcctatggaatgcagggaaatagtccattttaccaaaggctaaggctaaaatactagaatttgcaacccctaccactaaaaaggaggcccagaaatttattggcttgtttggattctggagacatcatattccccacttgggtaacattttacaacctctgcatgcagccactagaaaacgctatgactttcactggggagagaaagagagcatggcttttgaacaagctaaacaagcggtgcaactggccctggatctatggcccatacgggatgggccagtagaactgcaagtaactgtcctagatcaacatgctaattggagccttaggcagaaacaagatgggaagagggtacctttggggttttggacccggaaactgccagaggccggcaaagcttatacccctttcgagaagcaattgttagcttgctattgggctttgctggaaacggaacacctctgcttcaaccatgatgtctttatgaggcctgaaattcctattatgacttgggtcatgagttcccccaaaacccaccggatagggcacgcccaagaaagtagcatcataaaatggaaatggtacatacaagaccaggctaagccaaaaccaaagggggtatcacttttacatgaggatgtacaaaacttgccagctcaggaaaccaccgagcaagtcctgcagatagggaaggaaacctcccccgcccaatggggcaaatcctttaaagaactaagcccagaggatcagaaacatgcttggtttactgatggatccaccaaatacattggtgggacccgatgctggaaggccgtggcttataatcctgttaaaaacataagcatttctgatgaaggaaggggtgggagcagccagctggctgaactagtagccgtcctccgagctattcaggaggaggccagagggatttgtcacttgtataccaactcttggtcagtagcaaatggtcttactacctggatgccccaatggcaacgaaacaaatggttaattgggaataaagaggtttggggaaaacaatactgggaagatatctgaatcctggcgcacactaccattatcactgttttccatgttgatgctcatgcgtctctgctttctcttgacagactatttaatcagcaggcagatcaacaggccaaaatttccaccataactgcaaacttgaatgcggatgaantggattgggctgcgntcacgcaatgggtgcatcnccagtgnggacacctaggcgtncagggaaccatggcttgggganngcaaagagggatatcgttaccnnaggatgcggttcanacaactttatcccaacgcactacacgccaacagttaaaaaccaagccagttcctcagagggctntggggcacattcacnggggaaaaatgccaggacaaatttgncaaatggactatacttgtcccttgccactttctaaagggtgccaatacatatgtactnctgtagacacctgctcagggctcctagtagcctgcgcttatgctaatgctaaccaaactaacactattaaaacntnaaacatcctaattctatatnatggtgtgcccatacaaattcaaacggacagtggctcccatttcaaaggtgaggctgtacaaacctttgcagcccaanatggcatngaatggattttccacatcccntgccacccgcaggcagctggcctaaccgaaagaatgaacgggttattgaanaaacagctgaaggtgttagggcaaggtaagttagaaaaatggaangatcacctgtttganacantacaaantttaaacaatcggcnattaacaacatctgaaaccccantgagccaaatgcttaccccacacctacaaattgctaagtgtgccggtgtagtccancctctctcgctgaaatnctggaaaatccacccggaggctatactcccatggaggagtacaanaggagctgccggcttggacttacatagtttnaagcctgggataattcccgcccaaagtacatacacggtggccncnggcctaggagttattataacttgcaatgaatgcggatggattacaacgcgttcaagccttgcaatgagaggcattataatgtatggtggtataattgatagtgattaccggggagagttaaaggtcattttatacaataccactccagattcttttgctataaaaccgcagatgcgggttgctcaattgttagtggtaccttgtcaacaattaacccctgaggaaatctctgccccaacagaggctacatacagaactgggggattcagatccactggtacaggtagcttaaatcctggagccaaaatatgggtacagcgtccatcagatcccgcccctaaggctggtgaccttgtagctatgggagcagaaaatgaaggcatagtacaatttcctaaagatgaaaaacaatatcatgttcccctccgtttttgttattacagggaataacctgtctactaatggtcagcacctgtgtcttcgtgtctgaggccgagaataaattcatcaactgggtagccaccgctgcaacagaagccaaccgcagtcaatgttggctatgcgtcgagttgccagaggccgccgggaatgggctaccttggagaatcgtccctgccaacatttctgaatggctatgtcgctaccaatggggccgcaacaacaacacttgcaatccaacctggacttcctttgaccanaccaagcaatctatctttgcccaagtcagacgaaaggtgaactccaccctcgccttgcgtcaaaagccttggtatcctgcccaatatncctggaacggtatatactgggaacctgctgtgctggtggccggattccatatagcccccgctttgtctggaggccttaaatggctcctctaatgttactctggggtttctcccgccagacaattgtcaacacatactccaaatcaacaacattgcccccaatgaaacacaatctctttcctactttaataacacattagtacactacgattacagtaganccattgctgtcccctggggggccctctgggtatgcggatcctacgggtggcgatacctgcccccacattggacggggagatgcacttgggggtggccattaattccattcaccatccgggataatattcccctccccagtaatctagatgcttacaaacatcgctggttacgaatgcgccggactccctggtggtggtaccctatcacagtattctcccctgccgccggtacaatcctgcttcagcaacaaattaaaatattaagcttacatgtagaaaaagctcttaatgatagtagcactggacttatgttgttatcagatgaatttgctcagctgcgtactgttgtgttgcaaaatcgaatggcattagatatgcttaccgcagcccaaggaggggtttgcgccttactgcatactgaatgttgtgtgtatatccctgacaattctcacaatatnactctccttgcnaaagccatgcaaaaacaagtaaaacagttagaatctaaccatcaggaccccatcatggactggctgtcnaactggcattggcgttggccatggtgggtgtggtttttattaattgtgcttttaattctcctgtgcttaccctgtatctgtaatctatatcaactatgccttccccatgtatctgtaagggtattttcctacaattgagtatcaaattgaggccgaa
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 ZNF793 8 99.0 Weakly correlated
2 ZNF766 6 43.0 Highly correlated
3 ZNF175 5 94.0 Weakly correlated
4 ZNF584 5 99.0 Weakly correlated
5 ZNF75D 4 94.0 Weakly correlated
6 ZNF549 3 87.0 Weakly correlated
7 ZNF589 3 28.9 Moderately correlated
8 ZNF597 3 94.0 Weakly correlated
9 ZNF320 2 28.9 Moderately correlated
10 ZNF81 1 99.0 Weakly correlated
11 ZKSCAN1 1 160.0 Weakly correlated
12 ZNF786 1 99.0 Weakly correlated
13 ZNF705E 1 0.0 Weakly correlated
14 ZNF705D 1 28.9 Moderately correlated
15 ZNF705B 1 28.9 Moderately correlated
16 ZNF679 1 28.9 Moderately correlated
17 ZNF554 1 99.0 Weakly correlated
18 ZNF534 1 19.6 Weakly correlated
19 ZNF506 1 28.9 Moderately correlated
20 ZNF485 1 94.0 Weakly correlated
21 ZNF479 1 6.4 Weakly correlated
22 ZNF382 1 99.0 Weakly correlated
23 ZNF274 1 99.0 Weakly correlated
24 ZKSCAN8 1 160.0 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 ZNF597 3 94.0 Weakly correlated
2 ZNF75D 2 94.0 Weakly correlated
3 ZNF534 1 19.6 Weakly correlated
4 ZNF479 1 6.4 Weakly correlated
5 ZNF793 1 99.0 Weakly correlated
6 ZNF705D 1 28.9 Moderately correlated
7 ZNF705B 1 28.9 Moderately correlated
8 ZNF549 1 87.0 Weakly correlated
9 ZNF81 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