ZRdb KZFP & Repeats
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LTR_HERVK9

  • Name
    HERVK9
  • Repbase
    HERVK9I
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000196
Description :

The associated long terminal repeat is MER9 and its variants. Features:gag (~123-1559), protease (~1421-2365), polymerase (~2257-5097), env(~4883-5694). Insertion variants found at position 5689 (661 bp insert)and position 5195 (206 bp insert). The original consensus was generatedfrom 73 proviral loci.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
agtggcgtccacgtgggggctcgaatccaggtcgaagggtcgccggagcgacggttggagaacgtggaannctaagctggaggacacccgagtactcttaaagcaatccccgtggtgagtaagaaggggagctcggaagcatcagggtaacaatgggacaagtgtggggtctggttcgttccaccttggaactttttcacactgatgatgaggaggaaggagagtataacgaagtaacagaagaggttacagagcaggtttatttgccagctaaagctaaagcggcaaaggagggagaggttcatccctacccttctgcaccccctcattattattttgaagaaaaagagtggcctgaccctccagatctttcttttccggaggacactgggcgaaaagtagttgccccagtgactgttcgagcagcgcctcgagcgaccgctcttagttctattcaggcaggaattcagcaagctagacgagagggtgatttagaggcttggcagttccctgttagaatacaccccccagatcaacagggaaatattatagctacatttgagccttttccttttaaattactcaaagaatttaaacaagctataaatcagtatggaccaggttctccttttgtaatgggactgttaaagaatgttgctgtttccagtcggatgattcctactgactgggacgctcttactcgagcttgtctaactcctgctcagttcttacaatttaaaacttggtgggcagatgaagcttccattcaggctgctcgcaatgcccaggcccaacctcaaattaatataactgcagaccaacttttgggggttggcggctgggctggtttagatgcacaantggtcatgcaggatgatgccatagaacagcttagaggagtgtgcattagagcttgggaaaaaatcacttcaggtggagaacaatacccttcctttagtgctataaaacagggaccaagagaaccatacgtngattttatagctcggttacaggagtctcttaaaaagatgattgcagattcggctgctcaggatatagtgttgcagttattagctttcgacaatgctaatcccgattgccaggctgctctgcgacctatcagagggaaagcacatttagttgattatatcaaggcctgtgatggtatcggaggtaatctgcataaagctactctgctggcacaggcaatggcaggactgagagtggataaaggaaatactccatttcctggagcttgttttaactgtgggaagcatggtcatactaaaaaagaatgtagaaaaaatcagcgagtcaggccgccagataggggaaaaaagaaaactgctgagcctgaaatatgtccaaaatgtaaaaaaggaaaacattgggctaatcagtgtcactctaagtttgataaagatgggaacccgatttcgggaaacgccatgaggggcccgtcccgggccccgttccaaaccggggcatttccggctcaggccattccctcacccctgtacaatgtctgtcccccgccacagccggtagtgccgcagtagatttatgctgcacaaaagctgtgagccttctgcctggggaacccccgcaaaaggtcccaacaggagtctgtggacccttgccagcggggacgataggattacttctaggaaggtctagtttaagtttaaaaggggtacaaatacatacaggagtcattgattcagattacaatggggaaattcaaattgttatatctacttctgttccctggaaagcagagccaggagagcgcatagcacagctcctgattgtgccgtatgtgggaatggggaaaagtgaaattaaacgaacaggaggatttggaagcacaaataaacaaggcaaagcagcttattgggtaaatcaaattactgataaacgtcctacctgtgaaataactattcagggaaagaaatttaaaggtttggtagatacaggagcggacatttcaatcatttctctacagcactggccgtccgcgtggccaattcaacccgctcaatttaacatagttggagttggtaaagcccctgaagtatatcaaagtagttatattttgcattgtgaagggcccgatggacaacctgggactattcaaccaattataacttctgtacctataaatttatggggaagagatttattacaacaatggggagcacaagttctaattccagaacaattatatagccctcaaagtcaacatacgatgcatgaaatggggtatgtccctggtatgggactaggaaaaaatttgcaaggtttgaaagaaccgcttcaagcggaaagacaaagttcccgccaaggnttaggatatcatttttgatggcggccattgttaagcctccagaacctatacctttaaaatggttaacagataagccaatttggatagaacaatggccgctaagtaaagagaaactggaggctttagaggaattagttactgaacaattagaaaatgggcacatagctccaacattttccccttggaattctccagttttcgtaattaagaaaaaatcaggtaaatggagaatgttaactgacttaagagccatcaattcagttatacaacctatgggagcattacagccaggattgccttctcctgctataattccaaaaaattggcctttaatagtcatagatttaaaagactgtttctttactatccccttagctgagcaagactgtgaacggtttgcatttacaattcctgcagtaaacaacctgcagcctgctaagcgttttcattggaaagtgttgccacaaggcatgttaaacagtccaacaatttgccagacntatgtagggcaagcaattgaacctactcgtaaaaaattttcacagtgttacattattcattatatggatgatatactttgtgctgcccccactcgagaaatattactccaatgttatgatcacttgcaaaattcgatttctcgcgctggtttaattatagctcctgacaaaattcagactactactccttactcctacttggggaccttagtaaatgacactaccattgtgccacagaaagtaaccatacgtagggatcaattgaaaacattaaatgactttcaaaaattactaggggacattaattggatacgacctgctctaggcattcctacctatgccatgagtaatctattttctatccttagaggagatcctagtctcactagccctcggcaattaacaaaggaggctgaggcagagttacagctgatcgaaaagcaagtccataaagctcaaataaatagaatagatccagagaagactctagatttgctaattttttcaactcagcattcacctactggtgttattgtccaagagcaggacttagtagagtggctttttcttccacatactaattcacggactctaactccttatttggatcaaatcgctactatgataggaaatgggagaactcggattgttaaattacatggatatgatcctggaaaaattattgtccctctcacgaaggcacaaatacagcaagcttttataaatagtcttacttggcaaacccatttagctgactttgtgggtattctcgataatcattttcctaaaacgaaactgtttcaatttttgaaattaactaattggattctccctaaaataactaaatttaaaccaattgaaggtgctgagaatgtttttacagatgggtctagtaatggtaaagcttcttattctggctcgaaaggtaaagttttccagacgccctatacttcagctcaaaaagcggagcttgtagctgtaattgaggtattgactgcttttgatatgcctattaatgtgatttctgattcttcatacgtggttcattccacacagttaattgaaaatgctcagttacgatttcatacagatgaacaactgatgactttatttacccaattgcaaacagcagttaggagtagaatgcaccctttttacatcactcacattagggctcatacacctcttccaggacctttgactgaagggaatcaaatggctgatcgcctagttgctantgcaatatctaatgctagacactttcacaatttaacccatgttaatgcctctggtctcaaacgcagatacagcattacctggaaagaagctaaagctattatccagcgatgcccaacttgccaaatggtacattcctcatcttttacaggaggagttaatcctcgaggattggaacctaattctctttggcaaatggatgtcacacatgttccctcgtttgggagactagcttatgtacatgtatgtgtggacaccttttctcactttgtctgggctacatgccaatcaggagagtcttctgcctgtgttaaacgtcaccttttgcagtgttttgcggtgatgggcattccagcttctattaaaacagataatgccccaggctatactagccaagctctagctacatttttctctatgtggaatattaaacacattactggtatcccatacaattctcaaggacaagccatagtggaaagaatgaatctctccctgaaacagcagttgcaaaagcagaaagggggaaacagggantacgggacaccncatatgcaactgaatctagcattattaactttaaattttttgagcctgcccaaaggccagatgttatcagcagctgaacagcatctacagaaaccagctgcaaagacagaagcagaacaactggtttggtggagagatccgataacaaaaagttgggaaataggtaaaataataacttggggtagaggttatgcttgtgtttctccaggccaaaatcaacagccgatttggataccatcaagacacctgaaaccttatcatgagccagatgccgaggaagagattccgggaggatcccgagggncccccggttgcagccatgtcgagactgacgctgaggaggaccccaactgtcacgagcaacacccgtcgaacacagccacccacctggggacagatcaagaagctgtcacagatggcggaagaaaacctgaggaaagcgggacaaccagtcacaatgagtaatttaatggtagctatgatagcggtgatcaccactgccgtgagtattccttcaacaagggctgacacagagaacaattatacttattgggcatatttatcaatcttggctggcaataatgcctggatgtaatcactctatgacacagttacacatgctttctgatctcagtatttaccataataaatctgctcctataattgaggcataccgccctcaaaaacctatttgtaaacagaattggacccggccagaaaaaatgaacgtacttgtttaggaagattgcattgcagaacaggcagaggtgctgcgcaacgattcctatggaatcattattgattggtcccctaaggggatgtttagcttgaattgcacctctcagtctgcgtgccacggccacactatgttcagctggtctgaacaaaacggtcagatggtagaaatgataagaagtacggcaagagttcctattatctggaaccatggcggtatagtggcacctcaacctcaaatgatatggcccgctgtaggagctaaacataaggatttgtggaaactattaatggctcttaataagatcaaaatttgggaaagaataaaaaagcatctagaaggacactctacaaacttgtctttggatattgcaaaattaaaagaacaaatatttaaagcatcccaggcacacctgaccttaatgccaggaactggagtgcttgaaggagctgcagacagattagcagctagtaacccattaaaatggataaaaacacttggaagctctgtgatttcaatgatgattgtgcttttaatctgtgttgtttgtctttgtatagtctgcagatgcggatcccgactcctgcgagaagtagctcaccgtgacaaagctgcctttgcttttatcgctttgcaaacaaagaagggggaca
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. :
...
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 ZNF816 211 28.9 Highly correlated
2 ZNF28 90 28.9 Highly correlated
3 ZNF723 78 15.2 Moderately correlated
4 ZNF440 76 28.9 Highly correlated
5 ZNF479 52 6.4 Weakly correlated
6 ZNF626 29 0.0 Weakly correlated
7 ZNF417 23 28.9 Highly correlated
8 ZNF320 16 28.9 Highly correlated
9 ZNF468 15 28.9 Highly correlated
10 ZFP57 13 87.0 Weakly correlated
11 ZNF587 11 28.9 Highly correlated
12 ZNF528 11 43.0 Weakly correlated
13 ZNF92 10 28.9 Highly correlated
14 ZNF317 10 99.0 Weakly correlated
15 ZNF610 8 28.9 Highly correlated
16 ZNF701 7 28.9 Highly correlated
17 ZNF506 7 28.9 Highly correlated
18 ZNF382 7 99.0 Weakly correlated
19 ZNF18 6 160.0 Weakly correlated
20 ZIM3 6 87.0 Weakly correlated
21 ZNF485 4 94.0 Weakly correlated
22 ZNF534 4 19.6 Moderately correlated
23 ZNF680 4 28.9 Highly correlated
24 ZNF766 4 43.0 Weakly correlated
25 ZNF793 4 99.0 Weakly correlated
26 ZNF324 3 99.0 Weakly correlated
27 ZNF257 3 0.0 Weakly correlated
28 ZNF705D 3 28.9 Highly correlated
29 ZNF350 2 99.0 Weakly correlated
30 ZNF394 2 99.0 Weakly correlated
31 ZNF705B 2 28.9 Highly correlated
32 ZNF589 2 28.9 Highly correlated
33 ZKSCAN8 2 160.0 Weakly correlated
34 ZNF2 2 99.0 Weakly correlated
35 ZNF175 2 94.0 Weakly correlated
36 ZNF584 2 99.0 Weakly correlated
37 ZNF554 2 99.0 Weakly correlated
38 ZNF679 1 28.9 Highly correlated
39 ZNF765 1 8.6 Weakly correlated
40 ZNF611 1 19.6 Moderately correlated
41 ZKSCAN1 1 160.0 Weakly correlated
42 ZNF627 1 74.0 Weakly correlated
43 ZNF780A 1 43.0 Weakly correlated
44 ZFP69 1 99.0 Weakly correlated
45 ZFP37 1 99.0 Weakly correlated
46 ZNF560 1 43.0 Weakly correlated
47 ZNF558 1 99.0 Weakly correlated
48 ZNF549 1 87.0 Weakly correlated
49 ZNF547 1 74.0 Weakly correlated
50 ZNF530 1 28.9 Highly correlated
51 ZNF101 1 43.0 Weakly correlated
52 ZNF519 1 19.6 Moderately correlated
53 ZNF510 1 99.0 Weakly correlated
54 ZNF44 1 43.0 Weakly correlated
55 ZNF197 1 99.0 Weakly correlated
56 ZNF418 1 43.0 Weakly correlated
57 ZNF202 1 160.0 Weakly correlated
58 ZNF33A 1 99.0 Weakly correlated
59 ZNF331 1 94.0 Weakly correlated
60 ZNF251 1 94.0 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 ZNF816 105 28.9 Highly correlated
2 ZNF440 72 28.9 Highly correlated
3 ZNF723 71 15.2 Moderately correlated
4 ZNF479 34 6.4 Weakly correlated
5 ZNF626 27 0.0 Weakly correlated
6 ZNF28 24 28.9 Highly correlated
7 ZNF417 23 28.9 Highly correlated
8 ZNF587 11 28.9 Highly correlated
9 ZNF468 11 28.9 Highly correlated
10 ZFP57 7 87.0 Weakly correlated
11 ZNF506 5 28.9 Highly correlated
12 ZNF317 4 99.0 Weakly correlated
13 ZNF320 4 28.9 Highly correlated
14 ZIM3 3 87.0 Weakly correlated
15 ZNF534 3 19.6 Moderately correlated
16 ZNF701 2 28.9 Highly correlated
17 ZNF485 2 94.0 Weakly correlated
18 ZNF680 2 28.9 Highly correlated
19 ZNF331 1 94.0 Weakly correlated
20 ZNF101 1 43.0 Weakly correlated
21 ZNF780A 1 43.0 Weakly correlated
22 ZNF793 1 99.0 Weakly correlated
23 ZKSCAN1 1 160.0 Weakly correlated
24 ZNF44 1 43.0 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 ZFP57 87.0 Weakly correlated
2 ZNF28 28.9 Highly correlated
3 ZNF468 28.9 Highly correlated
4 ZNF626 0.0 Weakly correlated
5 ZNF723 15.2 Moderately correlated