ZRdb KZFP & Repeats
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LTR_HERVK11D

  • Name
    HERVK11D
  • Repbase
    HERVK11DI
  • Type
    LTR
  • Emergence
    19.6 Mya
  • Dfam Id
    DF0000190
Description :

The associated long terminal repeat is MER11D, and has 6 bp TSDs.HERVK11D encodes 4 proteins: gag (~162-2027), protease (~1985-3032),pol (~3113-5590) and env (~5804-7750).
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tctggcgcccaacgtggccttctttgttcctcggctcagtgcactccgagtgcgggttcgtgacgactagtcttcagtctcgacggtaaggtctccgggtacgctttttccgactctcccctcttttcgggtttgtcgaccggtattattccagggttattatgggacaatcacagtctaaacaccaggcttatctgtcttttattaaacttcttcttaaacagggtggaatcaaggctgattccaataaccttattctcttatttcagactattgaaaaatattgtccttggttccctgacaaaggttctatggacctgttagactgggatagagttggcgccacnctccgccaactcatgagagatggtgttttacttcctatttctgtttggactgactgggctcttattcgtgttgctttacttccttttcagtctggtgatcctcttcaactgccacaagttaacgcggatggtgagccgctccctttacctcgggtagctgacccccctactagtcctccttctgatgatgaggaggaattcgatctctccttgttttctccccaagaggaggaacctggtgatgatcccctccctccgcctcctatcttggaacctgtatatgttaactcttcttctactaagccgttgccccctctgccagaggaggacgtgtggcattcatctgaatggcctgtttctcgttcctctcgtccttttggacctctcccctcttctaagcctactgtttctttcgacgctccgggaccccttctttcagaggcttggaatcctgcttccccccagtccacgtcccggcgccctcactctccttctctcttttcctctgcccctgctagacctgtccgcacttctattcaggaggcaatgtgtagagctatggcttctagtggtttggatgtctggcagctccccatagccatagcctctaagtgtgaaggtgcaggagggtggggaaaaggcacagctaaaggccggtgatattatgaatctttctctgtacaactccttaaggattttaaagctgcttgtgatcaatatggaccaaattctccttatgttaaaactgttctacattcccttaccactgaaaaacaacttgttcctattgactggaatttgttagctcatgcttctcttaccccttcttgattcctacaatttaagatattgtggtcagaagaggccatgattcaaacttcgataaattttgaaaatgagactgaagtgccttatgatatgcttatgggtactagtgatttgtggaatatacttgctcgacaattggaatatagtcaacgtattttaactcaggtaactcaagtgtgtttacgagcatgagaatgtattcaagacacaggcaaggcccctttatcttttagtgctattaaacaaggtccttctgaaccctatcctgatttcatggcttaactcacagatgctgctgaaaaggctatttctgatactagagcaagagatgtggttatccgacttatggcgcttgaaaatgctaacactaagtgtcaggctgccatatgaccattacgtcgtaaaacccaaaacacacctgatgatgccatcattccttcctacattagagcctgtgatggtattggttctgaaactcataaagctatgctcagggctcaagccatgacctcatctttaaaagctgctgctgttattctcaatgttcctacaacaggtgtgcccaatacttttcttggtacttgctacaaatgtgggggagtaggacactttaaaaaatcgtgtcctttacttaatgctaatccccaacaacctgctccacaaactccaaatttacaaaaaacacctagtactatttgcccacggtgtaaaaaaggtaaacattgaatgagttcttgtcaatctaaatttgatattantggtaatctgttgcctccttttaatgtggtcaacactgtttttaatccctttccatttcagggaaacagggggaggggccagcctcaagccccaatcccaatcagggctccggggtttcgttcncccctccctgtggctacccctataactgcaccagaaatgccgcagactcaagtacaaacagtgccacagacattaccttaaattctatacccacaacccaatgccaattaccccctcctcttgtcccagtacaatgcccatccacctgcaccacaggagaggactcaatagacttatgtagtactctccctttgtctttactccctgaagaacaacctgtccttgctcctactggagttaaagggcctttacctaaaaatcatattggtttaattctgggcagagcttcattagccttaaaaggtgtaattgttcatactggccttatccatgccaacacttcagatgaaatatgtttggttatttctacaaaatctcccattttcattgaaccaggagaatgcattgctctattactacttctccctgaactgtgcccctccacagaatctgctactcacacaagaggtgtagaaaatacctttaaacaaaacaaagctgcttattgggttaatactatttcttctcaccaccgcanctgtantattaaaatttccngaaaaangtttgnaggtttagtcgacacnggggctgatntttctataancactgctaatcagtggccttcctcttggccnaaacagccctcttcaaccaatttagtgggagttggaaagtcatctgacgtataccgaagctctcttatgcttccttntacaggacctgatgaccaaatnngcactgttcaacnttntatcactccaattnccgtaaacttacagggacgtgacttactgcaacaatggggggctgaggtgtctatccncttatcaaattatagtgaagctagcaaaaacgngatgtataaaatgaattttntttcctggaagangattgggagttaanggagagggaattgaagagcccttggaaccctcccgaaaacttaacaaatcagganttngatacccttttaggtgccgtcactgctgngcctcccctgccnatcccctnnacaatggatgtgtgagtcacctgtttgggtagagcagtggccactttccaaacacaagttggaggctttaattgaaattgttaatgatttactacaagcaaacactattgagccctccttgtctccatggaactcgcctgtgtttgttgtacaaaaaaagtcaggaaaatggaggatggtaacagacttaagagctgttaatgcagttattaaacctatgggggcgttacaacccggtatgccctccccctccatgattcctaaggaatggcctttaattatcattgaccttaaggactgcttttttcatattcctttagacaagtcagactgtgaaaaatttgctttcactataccttccattaacaattcagctcccgcagctagatatcaatggaaagttttacctcaaggaatgattaacagtcctactatttgtcagttgtttgtcggtactgtgttacaacctatccgacagacttttaaaaataattacattcttcattatatggatgatatactgattgctgctcccactaaagatgaattaattcaatgttttacctctttaaaattagctgttgccaatgcaggactccacatcgctcctgataaaattcaacaagccactccttttctgtacttaggaatgcagctagaagctcgctccattaagccccaaaaagtccaacttcgtactgacaatttaaacaccttaaatgattttcaaaaattactaggtgacatcaattatctcagaccaaccctaggcatccctacttatgcattatctcatctatttgccactttatcaggagatacagatttaaacagtcctcgctctctatctgaaccagcaaaacaagagttgtcttttgtagaacaangagtgagagaggcacaagtctctcgtattgacccaaatttgcctttacaatttttagtttttccttccatccactctcctacgggacttatagtacaaaatgattctctagttgaatgggtatttcttcctaattcagcctctaaaactctttcaatatatcttgatcaaatggccactttaattgggttaggacgtcaacgtatcactaaaatttccggctttgatccaaacattattgtggtccctttgtcaaaaaatgaagttaaaaatgccttttctacatctttgtgctggcagactaatctggctgacttcattggcactattgataatcatttgcctaagtcaaaattctttcaatttctangaaatacttcctggattctaccaaaacttactcgttcatcaccactagaggcagccgttaccatttttactgatggatccagtaatggaaaggcagggtatgtaggaccaaaagataaagtcatttctactccatacacttctgctcaaaaagccgagttgtttgctgttatctctgcattacaggattttgatcagcctcttaatattgtctctgactcagcttatgtagtccatgccactaaggcaatagaaacagctaccatcaaaaatattgctgacactaatctgttttccttgttctctttgttacaaaaaactgtcagaaaccgaaaccacccttttttcatcactcacattcgttctcatactaatttgcctggacctttatccagtggtaatcataaagttgatactctagtttctctagccattacagatgcagaacaatttcatcaactcactcatactaatgcctcaggtcttaaacataaatattctctcagttggaaacaagctaaacaaattgtacaacactgttctcaatgtcaggttcttgtcttacccacacaatctcccggagttaatccccgaggcctttctcctaatgctatttggcaaatggatgttactcatgttccttcttttggaaaattagcttatgtgcatgtcacagttgacaccttttccaatttcatctgggctacctgtcaaaccggagaagccacttctcacgttaaaaaacatatgttttcatgttttgcggttatgggaattcctagtgagctcaaaacagacaatggtccagcctattgcagtaaagcttttaaaaattttcttgatcagtggcatattaaacatattactggtattccttataacccacaaggccaagctattgtagaaagaagtaacagaactttaaaattacaattacttaaacaaaaagagggggataaggagttgtctacccctcacatacaactaaacttggcattgctcacgttaaattttcttaatattcctaaatctagttctgttactgctgccgaaaaacatttctctggtaaccgtcccacggtaaaccaaggaagggaagtatggtggaaagatgttcaatctaatatatggtcaaaagtttctattttaacgtggggaagaggctatgcttgtgtttccccaggtgaacatcaatctcctgtttggattcctgctagacacctgaaattgtgtcctgaagatgcatgcaacaacgagacagagaaatttgctgaaaaagcgccacagcaggaaacaactaacacatccaatcgtcaaaaagaaanaaagaaaataaccacgctaactcctttacaacagacaatccagtcagccatcctgaacaactcgtctccagcgatccaggtccggctcaacctctgcctcctcctgatgacactgatccttctaccctctgtcactccacagactgttaaaaactatacatattgggcctatattccttttcctcctcttattcgagccatgacatggatggacgctcctatcgaggtctatgttaatgatagtatttggatgcctggttctgtagatgatcgttgtcctgcccaaccttcagaagaaggaacccctttcaatatcactttaggttttaggtatccacctttgtgcctgggacccactaatggatgtctctcattagatattcaaacttgggcggtcacactaccgtctggtcactctgtccctcctttaggacacttggtatcagggctctcattaaaacctctaaggcagatcaaaacaggaatcgctgattatattcacacatcccaatataagcctttaggacctgcgtgtcctctcaacttgtcttcaaatgctgacaaattaatatggaaggattgtgttagttcagaaggaactgtgttatttaattcttctcactacaccattgttgattgggctcctaaaggtcatattactaatgattgctctcaaggtcacagagattgtcaacattttctctatgatattacttatcaaaaaagtagtgacaaccctcccctattatatcgtagatttaactccttttttcctcttaagtggaaaggggcaggggttgcccctccaaagccaaggctcgttgttccccacttaggacctgaacattcagaattatggagattaaccatagctatgactggtatgagagtttgggctggagaaagtgttataagtaaatccaccttgtcacctcgaaaactaagacaacagattgatttacactactatttccacacagccaaaaatatcactatggcaatcgtcaaaaggtcaattcaaagatgggacagtaaagattatgaggacttatacccccccgttgctaatgtccccccaccacctctcatacaacctattccccccaccccacattcacaaaaaagagtaccatcccaaaatatatatactatctatatggagtccaacaaaactataccacttaaaagttgtgttaaaccaccatatatgttattagtaggaaagatgcatattagttcaaaaaccaacataattacctgtgttaattgttacttgtatacttgtattgactcatcctttaatcaatatcatagtattttaatagtcagagccagagaaggtatttggctccccgtagccttacataggccttgggaatcttccccttctatccatgttattaacaatattctacagaaaattcttaaaaggagtaaacgatttatttttacattaattgcagtaataatgggcttgattgctgttactgtgactgctgctactgctggagttgcattacatcaatctattcaaactgttcattttgtggataaatggcaaaaaaattctactcggatgtggaattctcagtcaggtattgatcaaaaattggccaatcaaattaatgatctaagacaaactgttatatggatgggagatagaattatgagtttagaacatagattacaaatgcaatgtgattggaatacttctgatttttgtataactccgttccaatataatgagtctgttcacaattgggaatcagtaaaacgccatttacaaggaagtgaagataatttaagtttagacataagcaagctaaaagaacagatttttgaggcctctcaagcacacttaactgctttacccggtgctgaagttttagacggtatctctgaggggttatctaatctcaaccccattcaatgggtaaaatctttgggaggatccactatcgttaattttgttctgtgtataatttgtgctattggtttattgttcatgtgtaaaattggaaaaaatattcttcaatccaatcgtgatcagcgccaagctatgattgctatggttcatttaaatcagagaaaagggggaga
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 ZNF723 8 15.2 Moderately correlated
2 ZNF382 5 99.0 Weakly correlated
3 ZFP37 4 99.0 Weakly correlated
4 ZNF394 3 99.0 Weakly correlated
5 ZNF2 2 99.0 Weakly correlated
6 ZNF417 2 28.9 Weakly correlated
7 ZNF587 2 28.9 Weakly correlated
8 ZNF101 1 43.0 Weakly correlated
9 ZNF140 1 99.0 Weakly correlated
10 ZNF251 1 94.0 Weakly correlated
11 ZNF534 1 19.6 Highly correlated
12 ZNF549 1 87.0 Weakly correlated
13 ZNF558 1 99.0 Weakly correlated
14 ZNF641 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 ZNF723 7 15.2 Moderately correlated
2 ZNF587 2 28.9 Weakly correlated
3 ZNF382 2 99.0 Weakly correlated
4 ZNF417 2 28.9 Weakly correlated
5 ZNF101 1 43.0 Weakly correlated
6 ZNF2 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
1 ZNF723 15.2 Moderately correlated