ZRdb KZFP & Repeats
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LTR_HERVL18

  • Name
    HERVL18
  • Repbase
    HERV18
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000199
Description :

HERV18 is flanked by long terminal repeats LTR18A-C.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
atagtcggcaggatcccgaggtgagtgagccttcggcccccgatgatcccgggtcggccatgtggccgcagcatgggctgtggtacccggtggcagccgtgctgctcggatgggccccggtggaaacntgggcggcggtggacgggtcccccgcgagcgtggagaaggcgctgaagcagctggaagcgcagagcaccgagaaggagcgcgcctttgccggcagagtcggatgggcgtttttgactgcgctacgggaagtacacgcccagtccctgcgggatgcagcgcaggtaagggacctccaggcgcaagcggggcgcctggaggcccggntacacagctcggaanaaganttgggggtaagggacctccaggcgcaggcggggcgcctggaggcccggntacacagcttggaanaggaattagaggctgccgtnagtgcgggcctgggcccgtcgtcccggccggagacccccgctcggtctgataccgaggaggaagaaccccccgttgcgggctcgcccagtggtccgtcagaaggtagancatgaacagccgntggggccccaagggcgggctcagggaccccccaccgtgacggaacacacttcatatagtgcctataccccaactgagttgcgggaattaggcaagcagtgccggcagcgtccgggggaacccctgcccgcctggatgcttcgtctntgggacgagggagcngacagtatttcctgctccgcctctgagatggaaaagctggcctctatcacgactcacccctccctccgtcagcggttgcaggtgagcaggcggttggcacaagggcaaggtgaccacaccctgattgagtggctgatggcagccatacggactgtgtggaacgacgccggngaaataccagaaactgtgagtaaatggcagtcgtataccgatttggtgcaagtnatccgggagatgggtatgcggcaggctatgtttgatctgaatacccgggggccagatgatgaacgctttacctcccacatgagggatctcgtgttgggctctgcgcccccgagtgcctttggctccctagccgctgtcctcaccccgtacgtggggcgccgcatacatgaagtgactactgctatggcggccctcggggaagcagaaggccatcggcgggaccggggggtccgcgccataaagaaggggaaggtgccccncccgcagggggccaccccacggganaaaagggggccccagcgggtgacncgcncgcagatgtggatngatttgatttcggccggggttgaccgagagaaaattgataggcagcccaatgaagtgctgttaactttgtggaggcaattgtccccggagcagcaattccggaaaatgcccaagggggggnaggacantgctgcgcgacccagtcccgcccgggcgctccagctcaaggactacttgcagncgggcggagatgtagagccttttctgtttgattagggaactggccgaggtgcccggcttggggggacaccggacgaccggaggccacatgtggaattggcaatccactggtcccccaccaatgtacagcgggtgctggcgctggtagatactggcgcagattgcagcctcgtttatgggaacccggataagtttccgggcaaagctgcatacattgacggttatggaggccggtcagtgaaagtgaaacctgtatctctgcaccttggcatcggccgcttggctccccgcttatacactgtgtatgtctctcccatacctgaatacattctgggggtggacgttttacacggcttggncttacaaaccacggccggagaattcagactccgagtncgtgtggtgaagccggtgctgcgtggacatacgcatcaccagccccaggtcctgccacaaccccgacgggttacttccacccgtcaataccgtttgccgggtgggcatacggagataactgagacnattaagaagctggaggaggtgcagatagtgcgtggcacccacagcccctacaattctccggtatggccagtcagaaagcctgatggaacttggcggatgacggtggactatcgggaactgaataaagtaacaccccctttgcatgcagctgtgccgtctatcacggatttgatggaccgcttgacgacggaactgggacagtaccactatgtggtggacttggccaatgcattcttctccatcgacattgctccagagagccaggaacagtttgccttcacgtgggaggggcgacaatggactttcacagtgttgccgcagggctatgtgcatagccccaccatatgtcatggtcttgttgccacggatttagccgcctggnaatgtccagaaggggtccgcctattccattatattgatgatattatgttaacctctgattctcttgcagatttagaagcggcggcgcccctcttgcggcaacatttggcagcatgcggttgggccgtcaacgaatccaaggtccaagggcctggattgtctgccaaattcttgggagttatctggtcgggtaagacgaaggccataccagaggccatcattgataaaattcaggcatatccccggcccaccacggtgaggcagctgcagacttttgtgggcctcctgggatattggcgggcatttgtgccccatttggctcaaatgataaaaccgttgtatcggttaacaaagaagggagctacctgggattgggatgatgcggctgagacngccttcctggcagccaagcgggctattcagcaggcacaagccctacgggtagttgaccggggcgcccatttgagctggatgtgcatgtgaccacagatggtttcggctggggcctatggcagcgcacggagcgcttgagaacgccagtaggcttttggtcccaactatggaagggagctgagctccggtattcnttgatagagaagcagttagcagctgcatatgccgcccttcaggctcgtgagagcgtgacaggacgggctacagtcgtcgtgcggacgacttacccaatagcgggatgggtgcgttcatgggtaacgaccccccggactgggacggcgcagacatccactttagcaaagtggggcgcctacttggagcagcggagtacgctgagtacaagtcccttagcagcagagttgcaagaggtcttgggacctgtagtcctaatgcaagataaggccatggggcctgaggcacccctagaccctgagccttcaccgtttaaggaagggcgtccccccattcccgatggggcatggtacacagatgggtctagccggggtgctactgctgcctggaccgctgtcgcagtccagcctagtactgacaccatatggtttganaccgggtgtggacaaagtagccaatgggctgaactcagagcagtgtggatggtgatcaccaaggaggtgacacctatggtaatctgcaccgatagctgggcagtttatcgaggcttaacttgtggttaactacctggaagttacagaantggctagttggccaccggcccatntggggccaagccatgtggcaagacctatgggaaatgggtcatcagaaagangtaactatttatcatgtgtcaggccatatgcctttggccacccccggcaatgatgaggcagatgccttggccaaggtccgatggttagagtcggcacctacacgagatgtggccttgtggctacaccggaaactgggacatgcggggggtaaactgatgcaacaggtcaataagcgttggggtctgtccctgcccacgcaagacatttgggaggcttgtcagaaatgcccggcatgtgctcaggcataccctaaacggaggcagctgcccagtgttacacaacaagtgacgatagggcgggtgcccttgaccaggtggcaagtagactacatcgggccgctgccgaagtcgcaggggtatacgcatgcgctgacggctgtggacacggccacaggcctgttgttcgcctacccttgcagggtggccgaccaacagcacaccatccgggccctgcaacacttatgtgccctgtatggtcgccctctggccgttgagagtgataggggaacacatttcactggacaacaggtacaacagtgggcacaacagatggacataaagtggggattccatgtgccatacaacccgcaagccgcgggtatgattgagcgatataacgggctcttgaagaatgggttacgcttgcatgtcacncccccgtctttgcggggctggagttccaggctggacctggtgctccaaaccttgaatgaacggccacggaaaggcggcccggccccggtggaggcnttgttacaccgggccgccgcccccattcagttgcagatacacaccaaggatgacctcctccgaccaggtatggggacgaacggtaacctgttgttgcctgccccaacgcccctgaaggcaggggaacagaaaacctggctttggccatggaccctccaagccccccactgccggtggttggccatcgtagccccctggggggagggcctacagtatgacttgcatgtcactccttgggtattcaatgcgtggcccccgcggttgaccgttcgtaggggaacggccagggaaggaaccctcctccgggggacatatgtactgtctgtgtggcctattatgagctcccccgtgactttggcacggatacaggacccaaaggaaccatggggagctgagaaggtgtggtaccatcgcccagggcagaagcccttggcggctgcattgttatccagggatgaaaggttagcctgtattttgcctgagggacgtgatttacccctgttagtacctgtgcctgctctgtcgtttcggccgtaggttgacatgctccaacngcattgtggactgggcccacacctacgctgaggtgaccaatgtttccaactgttggatctgcaccgcccttccagcagcagctgcggacggcttgccctggcacatacatccagcntctgcggagaactggacatggctggagacttggggtcccatggccgacgcctggaatgcaacgcggcaagctttggacagggggcgccgcaagacccatggcancgcccgccccctggctggcccgtagcgtctatgatgggtggggctggctagtgggggaacacgtggtgcccccancgcaggtaccacggtgcatagagcaacactggggtaacgccactgtgggatggntgcccgccgcggcctgtgcaaacataacacgtgtcaccacaccgaaggtgtggtggaacaagcggccccaccaaggccgggccccgatggactttgtgccccctgggagtttatgggtctgtggggacacagggtggccntacctgccagcgaactggactggacgttgtacctgggggtggccttatgtgcctgccactgttctccccacattgcccagacgcccgcataactgggaggcgctacgctcccggtttttgcgagtgcggcgagccccctggtggttctaccccttggcaatgactatccctggagcgggtgtcatnactgtagaagcgcaagttacngcccttgcagagcacaccgctcgggccctgaattacacccgagtngccctcctcctgttaacngatgaggttgatcagatcagaaaggtggtgctgcaaaaccggatggccttagacatagtaactgctgcccaaggnggcacctgtgcccttttaggaacacaatgttgtacctttatccctgacaatcggcagaacataacagcagccctgcaaggggtntcacgggagattaaggcggtcgagagccttactgacgaccccctgcagagatggtgggcatccctgggctctggcctacgctgggccctaatagtcataggtagcatagcngggatnctagtagtgagctgttgctctctgtattgttgctgtggcctatgggtccagggctccgccctatgggcacgtgtccccgccnagaggacnccctcggcctagggggtgga
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 ZNF486 80 8.6 Weakly correlated
2 ZNF382 46 99.0 Weakly correlated
3 ZNF679 27 28.9 Moderately correlated
4 ZNF394 26 99.0 Weakly correlated
5 ZNF766 26 43.0 Highly correlated
6 ZNF28 23 28.9 Moderately correlated
7 ZNF2 22 99.0 Weakly correlated
8 ZFP37 17 99.0 Weakly correlated
9 ZNF263 17 180.0 Weakly correlated
10 ZFP57 14 87.0 Weakly correlated
11 ZNF585B 14 99.0 Weakly correlated
12 ZKSCAN1 10 160.0 Weakly correlated
13 ZNF528 9 43.0 Highly correlated
14 ZNF589 9 28.9 Moderately correlated
15 ZNF141 9 43.0 Highly correlated
16 ZNF723 9 15.2 Weakly correlated
17 ZNF610 8 28.9 Moderately correlated
18 ZNF793 8 99.0 Weakly correlated
19 ZNF584 8 99.0 Weakly correlated
20 ZKSCAN8 8 160.0 Weakly correlated
21 ZNF175 7 94.0 Weakly correlated
22 ZNF519 7 19.6 Weakly correlated
23 ZNF197 7 99.0 Weakly correlated
24 ZNF429 7 28.9 Moderately correlated
25 ZNF558 7 99.0 Weakly correlated
26 ZNF554 7 99.0 Weakly correlated
27 ZNF320 6 28.9 Moderately correlated
28 ZNF324 6 99.0 Weakly correlated
29 ZNF101 5 43.0 Highly correlated
30 ZNF534 5 19.6 Weakly correlated
31 ZNF701 4 28.9 Moderately correlated
32 ZIM3 4 87.0 Weakly correlated
33 ZNF479 4 6.4 Weakly correlated
34 ZNF30 3 94.0 Weakly correlated
35 ZNF189 3 99.0 Weakly correlated
36 ZNF506 3 28.9 Moderately correlated
37 ZNF705B 3 28.9 Moderately correlated
38 ZNF440 3 28.9 Moderately correlated
39 ZNF44 3 43.0 Highly correlated
40 ZNF549 3 87.0 Weakly correlated
41 ZNF547 3 74.0 Weakly correlated
42 ZNF202 3 160.0 Weakly correlated
43 ZNF425 2 94.0 Weakly correlated
44 ZNF560 2 43.0 Highly correlated
45 ZNF705D 2 28.9 Moderately correlated
46 ZNF707 2 74.0 Weakly correlated
47 ZFP69B 2 99.0 Weakly correlated
48 ZNF317 2 99.0 Weakly correlated
49 ZNF257 2 0.0 Weakly correlated
50 ZNF222 2 43.0 Highly correlated
51 ZNF157 2 99.0 Weakly correlated
52 ZNF18 1 160.0 Weakly correlated
53 ZNF805 1 99.0 Weakly correlated
54 ZNF100 1 28.9 Moderately correlated
55 ZNF727 1 19.6 Weakly correlated
56 ZNF114 1 28.9 Moderately correlated
57 ZNF133 1 99.0 Weakly correlated
58 ZNF140 1 99.0 Weakly correlated
59 ZNF17 1 69.0 Weakly correlated
60 ZNF181 1 94.0 Weakly correlated
61 ZNF671 1 94.0 Weakly correlated
62 ZNF490 1 43.0 Highly correlated
63 ZNF586 1 43.0 Highly correlated
64 ZNF230 1 28.9 Moderately correlated
65 ZNF251 1 94.0 Weakly correlated
66 ZNF264 1 99.0 Weakly correlated
67 ZNF468 1 28.9 Moderately correlated
68 ZNF483 1 99.0 Weakly correlated
69 ZNF543 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 ZNF28 12 28.9 Moderately correlated
2 ZNF723 9 15.2 Weakly correlated
3 ZNF141 6 43.0 Highly correlated
4 ZNF429 6 28.9 Moderately correlated
5 ZFP57 5 87.0 Weakly correlated
6 ZNF263 4 180.0 Weakly correlated
7 ZNF679 3 28.9 Moderately correlated
8 ZIM3 2 87.0 Weakly correlated
9 ZNF2 2 99.0 Weakly correlated
10 ZNF486 2 8.6 Weakly correlated
11 ZNF157 2 99.0 Weakly correlated
12 ZNF558 1 99.0 Weakly correlated
13 ZNF44 1 43.0 Highly correlated
14 ZNF793 1 99.0 Weakly correlated
15 ZNF181 1 94.0 Weakly correlated
16 ZNF320 1 28.9 Moderately correlated
17 ZNF506 1 28.9 Moderately correlated
18 ZNF440 1 28.9 Moderately correlated
19 ZNF534 1 19.6 Weakly correlated
20 ZNF479 1 6.4 Weakly correlated
21 ZNF707 1 74.0 Weakly correlated
22 ZNF382 1 99.0 Weakly correlated
23 ZNF133 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 ZNF141 43.0 Highly correlated
2 ZNF28 28.9 Moderately correlated
3 ZNF429 28.9 Moderately correlated
4 ZNF723 15.2 Weakly correlated