ZRdb KZFP & Repeats
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LTR_HERVL40

  • Name
    HERVL40
  • Repbase
    HERVL_40
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000201
Description :

The associated long terminal repeat is LTR40. There is considerabledivergence between subfamilies over positions 4700-5200, and it ispossible that a fragment is missing in this region.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
ttttggcgatgaggatggatgggatgctgacagagacatggctttctggaagaggaaggatgagggcctcgcgggccgattaacgggatttgagggaagtccntgggaatcggtagcgaacatgttgaccaaattgtatggtcaaccgggcaataaatggtcctccactttattgcctgttaatgaggaggattggggaggtggttgcaggccgagtaccgggaagtaggttcaaagacagctgcccgaacggtgccctggttgttgctaactctcctncnggngngggacttccttaccaatctggagtcagcctcaggtccgccccattgtaacaactagtactaagatttntcctgggtgggcagaaggttccgccctctttcagacaacagttacagagatatgtaaccactgtgggcagaaaccaggcgaatcgttagaactttggctggttcgcttgggagatgagggngcggggcacgtaatgcttgttaaggaagaatggcaacagctgggccgtcttacggctcagcccctcctgcagtctatcatgccaaccttagatcctggctgccaataagagagcttngggactctcggggagatttccctgaganagacaaactcccgtgggaaaccatagatgaggcattgactagtattcgggctcttactgccccggattgggtttacaatgctgatgaaggtgacccactggagaatgagaaactgacccaaagaaatctagataaattcttgcgtcagcctgccgccctggaaaactcccctagcccttatgttgaaaccgggcgagaacttaagagatgttatggtaatggggcagcagatgccccggattaaggtngaatccttaaagnaagtcgccgctgtgcgagtcaagcccgagtcagccaggggacgcaagccccgcggccccagccagaaagcaatgtncggctgtggctgctgagtcaaggggtccccaaagctgaaataaatggtgtcagcaatgaggaccttgctacccaatatagagctttgggtggaccgaaaacattggaagttcgtttggttgagccacgagcagccgctacgccgctcgaaactgaaagtaaatgcaaagccttgcttactggcgcagagccgctctctccctncatgctncctgctcccctcccnnccaccccgacctcagctgctttaaggagaaagatgattagaggtggggccgaggtctccctgtccaagggggaccgaaggccatacgcacccgtccgagtatgctggggaacttcggggaggggagggactcaaacttttatggctctgttggatacgggcgcccaagtcaccatcctacctgnantcccgtggaaggaaaaggcgcccggattcagctaatggggtttgggcagggttcgcagtggggaagggaagctaacgtgaccttgtgggtgggncctttgggccaattcaatgtactgtnttgttgcttctacatctgaatgtatagtaggaattgatgtttatatgcttgtacttccccgtcccataagtgccagaggggatctcccgatcgggaagagccgcatgtagagaagtgctagtgggacacataaatcgctccgtcaccaggctccctgtcccctcccgggtggtccaacagaaacagtatagaatcccaggaggaagaaaggaaatcnnngccttgattaaggactnanacctaaaggcagcaggggtagtaagagatgcantatctcaatacaacagccctgtatggccagtgaaaaagnctaacgggagctggaggcttacagtggattatcgccaactgaattcagttgttgctcccatagccccggctgttncagacatcgcgactgtaactgaatccattacacagactgatggcacttggtacgctgtcttggacattgccaacgccttctttnccataccantggcacctgaggatcaagatcagttcgcattcatgtggcaaggcctccaatatatgtttgcagtactcccccagggntacctaaactcccctgccatttgccaccagtgggtgggtcaggatttagcgcgagtgcctctaccctctgatgtccaaagctttcactatatagatgatgtcctgttggttggcaagtcagaagcctcagtctcaacggccctgactgcggtgttatcacacctctgcngnnagggtggctgataaaccccganaaaattcaggggcctgctcgccaagtaaagtttcttggaactatgtgggcggattcacaacgctcaatccctccggcagtcaaggaaaagctgtctcttcagncccccaccaccaaaaaggagcaccttattggactctttgggtattggagacagtatgtgcctcacttgggcattctacttggtcctttatatcggctaacccgcaaatcagcatcctttgagtggggcccaaaccaacaggctgcgttggaagctgtccagcaagctgtggcacgctctctacctttggggccccacaaccctaatgacccctttgagctacaagtctctgtgactgatgattttgccgattggagcctctggcaaagggaggcagcctccacccggaggcgccccttggggttttggactcgctnccctcctgacacggctaccaggtacaccccttttgaaaagcagctattagcttgctactgggctcttgtcgaaactgaacgcctgacccatggaggccttgtgactctccggcctgatattcccattttggggtgggtcaactcggactcaatgactaacaaggtgggaagggcccaacaagcctcgcttgtcaaatggaaatggntatattcaagaacgcagccggcctggccccagcggcatctcggctttacatgaaaaagtggcagctatccctttgggggaaactttatcccccactccgccgcctgaagcaaagccgctggctcaatggggccctcgattcacagaggttcccctaaatgctgggcctggttcactgatggttcggctaagctgaaacccgatggtgtccactgggctgctgcggctgttcagcctcagcgccagctatgcagaaccgaaaacggacgtggtcgctccgctcagtgggcagaactcaaggccgttctcatagcctggccaatactccccttgatgaaccttgttatatttttactgacttnnggctgttgccaatggcctagccgtttggtctgccacttggaaaactacagactggcagattaaagacacccctctttggggccgcgaactgtggaaacaaatcgcggctgctgatcgaaccgtctgggtcactcatgtagatgcccacgtaagggcccgttctctgatgagaccgactggaatcaagctgctgatcgagcctgcaccgcccagattgccaccattgctgcctggatccatcatcgtaccggacatggcaacacatccaccatcatagactgggcacaaagtaaaggactctatgtttctgatgcagaggctaccactgcatgccagacttgtgactcctgccaaaagttgacccgtttgtctcgcggtgagggaggccacattgcacggggcattgcccccgcccgctcctggcagattgactacatcggacctttgaccccctctcggggctatcggtggtgcctcaccgctgttgacacntttttcaggttacggtgttgctgttccagtccgatcagccgactccggccacaccattgtggcccttgaaactaatctgtgtcatgttttcggctttccggaccatttgcagtctgacaatggtgcgccttttatcgcaaaagccactcaacaatgggctgatagtcaaggtattcgatggaccttccacgctccctaccatccacaggcatctggtattgttgagcgttggaacggcctcctcaaaaatcgactcaaaaagatttctgactctacctccctcacctcctcctggtccacacaccttagtaaggcagtttggtcactgaatgcggctgtccccagaaagggtcatctcctctcggccgcttcctgggtaatgatcaggacgaaaggagagtgcgggaggttatatagacctattttgaaaattcgggattccgcctgaccattcctgggcatgatgcttctttctttcccctaacggcaaccccaggccggcctggttggtacaccctccgggtggcagcccggccaaaagggggcctaggggattcaaacttaattctggttcagccacctggattctcttgttggattgacatggtcctagatcataaggataatgaccacttggttgagtacactgctcgccgagtccccctacagtggcccacgtggncaaagtgggggncataatgggtctctgtaagtttntataaaatgcccttgtccctcttgcacctgacccttccggacgaaaggtctgggtgcgagtaggagatgactggaaaaaaggtgaagttatagctactggaatgggacacaccgattttgtggcggtggagggagagcaacaaccctggcacctggggagggaacaccttagaccccgggaggtgcgggggagngaggggcattaatgntctctttgtcttttagatccagcaccgcagcctggcaaaacaatcatatggtccgctngagtcaagcagcagctgcggctggcaatctgacccgctgctgggtttgtcatccccgtccacgtgctatgaaaacagaaaaactcatgtggacatggccggtcctgaactattctgctgtgcctgatgccatcaacggcagctcccnaacgtggacgtgtacaaacacanggaccggcacaaccttgtttcaatctgactgatacaaattcatatgcttctcctgatgcccgagcggccttgggttatgccatgtatggcgatcgaggctgcaactactcggtgacactgcccatgtggcttaaccaaaccaatgtaatgaaatcaagtttaacaacaaatcccgaactggtgacctttcgggttatatgtttgtatgtgggggagagtgggccacggaatgtctctccattggggatgggggttgctttttggcccatctattgccccctgtaattattggcaatgacaccaaagatcagcaggtcagtctaaactcccttgcgcgggtcgtaatggataatagactggccttagactacatcctggctntctaaggtaagacctantggtcccgtttatgggatttgttcagctggttgggtccgggaccctggggggcatggttgaggtcaatactgcaggttggcctcatcctgctgcttggacgtcctgttgatagtagccttaattaaatgctgtatgagacaaattgaacggatttggtcccagcctctgtcggtcagattaatcagagtggccgacggagtggcgtactcatgggaaaattcgccagaagccaagacggtgtagaaacgaggggtggatat
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 ZNF382 76 99.0 Highly correlated
2 ZNF263 29 180.0 Weakly correlated
3 ZNF766 25 43.0 Weakly correlated
4 ZNF680 22 28.9 Weakly correlated
5 ZNF2 18 99.0 Highly correlated
6 ZNF394 16 99.0 Highly correlated
7 ZFP37 15 99.0 Highly correlated
8 ZNF320 14 28.9 Weakly correlated
9 ZNF317 14 99.0 Highly correlated
10 ZNF793 14 99.0 Highly correlated
11 ZNF528 11 43.0 Weakly correlated
12 ZNF701 11 28.9 Weakly correlated
13 ZIM3 11 87.0 Moderately correlated
14 ZNF101 11 43.0 Weakly correlated
15 ZNF534 10 19.6 Weakly correlated
16 ZNF18 10 160.0 Weakly correlated
17 ZNF324 10 99.0 Highly correlated
18 ZKSCAN1 10 160.0 Weakly correlated
19 ZNF554 9 99.0 Highly correlated
20 ZNF558 9 99.0 Highly correlated
21 ZNF479 8 6.4 Weakly correlated
22 ZNF705B 8 28.9 Weakly correlated
23 ZNF723 8 15.2 Weakly correlated
24 ZNF589 8 28.9 Weakly correlated
25 ZNF705D 7 28.9 Weakly correlated
26 ZFP69B 7 99.0 Highly correlated
27 ZNF679 7 28.9 Weakly correlated
28 ZNF175 7 94.0 Moderately correlated
29 ZNF257 6 0.0 Weakly correlated
30 ZNF585B 5 99.0 Highly correlated
31 ZNF264 5 99.0 Highly correlated
32 ZNF230 5 28.9 Weakly correlated
33 ZNF490 5 43.0 Weakly correlated
34 ZNF197 4 99.0 Highly correlated
35 ZNF597 3 94.0 Moderately correlated
36 ZNF610 3 28.9 Weakly correlated
37 ZNF75D 3 94.0 Moderately correlated
38 ZNF84 3 99.0 Highly correlated
39 ZNF584 3 99.0 Highly correlated
40 ZNF735 3 28.9 Weakly correlated
41 ZFP57 3 87.0 Moderately correlated
42 ZNF251 3 94.0 Moderately correlated
43 ZNF519 2 19.6 Weakly correlated
44 ZNF549 2 87.0 Moderately correlated
45 ZNF792 2 94.0 Moderately correlated
46 ZNF674 2 99.0 Highly correlated
47 ZNF778 2 74.0 Weakly correlated
48 ZNF222 2 43.0 Weakly correlated
49 ZNF157 2 99.0 Highly correlated
50 ZNF140 1 99.0 Highly correlated
51 ZNF695 1 28.9 Weakly correlated
52 ZNF248 1 99.0 Highly correlated
53 ZNF182 1 99.0 Highly correlated
54 ZNF141 1 43.0 Weakly correlated
55 ZNF75A 1 94.0 Moderately correlated
56 ZNF273 1 28.9 Weakly correlated
57 ZNF133 1 99.0 Highly correlated
58 ZNF786 1 99.0 Highly correlated
59 ZNF789 1 99.0 Highly correlated
60 ZKSCAN8 1 160.0 Weakly correlated
61 ZFP69 1 99.0 Highly correlated
62 ZNF93 1 8.6 Weakly correlated
63 ZNF30 1 94.0 Moderately correlated
64 ZNF506 1 28.9 Weakly correlated
65 ZNF486 1 8.6 Weakly correlated
66 ZNF471 1 94.0 Moderately correlated
67 ZNF468 1 28.9 Weakly correlated
68 ZNF559 1 74.0 Weakly correlated
69 ZNF573 1 94.0 Moderately correlated
70 ZNF44 1 43.0 Weakly correlated
71 ZNF585A 1 99.0 Highly correlated
72 ZNF682 1 28.9 Weakly correlated
73 ZNF28 1 28.9 Weakly correlated
74 ZNF284 1 43.0 Weakly correlated
75 ZNF274 1 99.0 Highly correlated
76 ZNF616 1 43.0 Weakly correlated
77 ZNF641 1 99.0 Highly correlated
78 ZNF667 1 99.0 Highly correlated
79 ZNF677 1 99.0 Highly 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 ZNF793 6 99.0 Highly correlated
2 ZIM3 6 87.0 Moderately correlated
3 ZNF680 6 28.9 Weakly correlated
4 ZNF534 5 19.6 Weakly correlated
5 ZNF723 4 15.2 Weakly correlated
6 ZNF554 4 99.0 Highly correlated
7 ZNF263 3 180.0 Weakly correlated
8 ZNF479 3 6.4 Weakly correlated
9 ZNF101 3 43.0 Weakly correlated
10 ZNF674 2 99.0 Highly correlated
11 ZNF317 2 99.0 Highly correlated
12 ZNF320 2 28.9 Weakly correlated
13 ZFP37 2 99.0 Highly correlated
14 ZNF528 2 43.0 Weakly correlated
15 ZNF549 1 87.0 Moderately correlated
16 ZFP57 1 87.0 Moderately correlated
17 ZNF766 1 43.0 Weakly correlated
18 ZNF506 1 28.9 Weakly correlated
19 ZNF679 1 28.9 Weakly correlated
20 ZNF701 1 28.9 Weakly correlated
21 ZNF75D 1 94.0 Moderately correlated
22 ZNF248 1 99.0 Highly correlated
23 ZNF589 1 28.9 Weakly correlated
24 ZNF789 1 99.0 Highly correlated
25 ZNF157 1 99.0 Highly correlated
26 ZNF264 1 99.0 Highly correlated
27 ZNF324 1 99.0 Highly correlated
28 ZNF2 1 99.0 Highly correlated
29 ZNF140 1 99.0 Highly correlated
30 ZNF175 1 94.0 Moderately correlated
31 ZNF597 1 94.0 Moderately correlated
32 ZNF490 1 43.0 Weakly correlated
33 ZNF735 1 28.9 Weakly correlated
34 ZNF141 1 43.0 Weakly correlated
35 ZNF558 1 99.0 Highly correlated
36 ZNF695 1 28.9 Weakly correlated
37 ZNF44 1 43.0 Weakly correlated
38 ZNF28 1 28.9 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 ZIM3 87.0 Moderately correlated
2 ZNF680 28.9 Weakly correlated
3 ZNF793 99.0 Highly correlated