ZRdb KZFP & Repeats
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LTR_HERVK3

  • Name
    HERVK3
  • Repbase
    HERVK3I
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000195
Description :

The associated long terminal repeat is LTR3, and has 6 bp TSDs.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
agtggcgtccgaacacagggacttcgaggacgtgaacgaagaaggtctgctggagcagaggaactgaaattgacaaggcgaacggggaccccgggacgagtctgccggcagcggatataaggtcagtgccctaaagaggtactgggagcaatataaggtcagtgccctaaagaggtactgggaacgggaagttttctgaatcagnggtaacatggggcagaatttgtctattgaagaaaaacattatcgtgcagttgcttaaagttctgttgagacagtctggngctcaggttagttcncagacactaactaagatgccgcaggaggttattacgcataacccatggtttccacaggcaggcactcttgatgtggaaaattgggacagagcaggagaaggattaaaacgggctcatcaaaaaggtcttaaagttgattcttctgttttctccacttggagtttagttcgtactgtncttctgccattatctccttnttattctgcnggacagcaggagtcatgttctgagtctaaaaatctgaaagaatctgttgtcccacccacagctccaattgaaaataaaaaacaggagagggaggataaaaattggcctataccgcctcctccagttgcagaaacatctgtaccgcctccttcggtagcagaaatagagaccccaatacaaagaattttacgctctgctgccatagctggagagcccttaggacctntgcgcttttcctatttccgtaaggcctgatccaaataatccacagcagnttattcatgaacacaccccactagagtttaagttgttgaaggaattaaaagctaagtgtggtnaataatggcgtacagagcccattcactttaggattgctagaatctgtgtttggtgctatgcgtcttctaccctttgatgtaaaacacttggcncgaacttgcttgtctgctagtgcatatctgacatggaatttaaattggcaagaaatgtgtgcagaccaggctagacagaaccgtgctgctggacacggagacattacagaggatatgctgttaggtaatggcccttnattcagacctggaacgtcaaatggcactcccagacgctgcttatcagcagtgtgcacaggccgctaaacgcgcctgggccacaattcctgaagagggagtcccagtacaatcctttttacatatcatgcaagggtcgcaggaaccctatgcgcaatttcttgcaagattacaagaggcagtgaagcgtcagattcctcataccgctgccgcagaaatgctaaccttaactctagcttttgagaatgcaaacgcggattgtaaacgtgcactggcacctgtgaggtgtaaaaaaacttgggaaattttctcagagcttgtcaggatgtaggaactgagcttcatcgctctgcaatgttagcncaagcaatggctaatttagcagttgacaaatctaaaaggagccaagggtcaaaccctaaaatgggaaaatgttataattgtggaaaaactggacattttaaaaaggaatgccgccagatctcaggacagaaaggaccttacaatgcagtnccccccacccccgcgnnccagcggaaaaaaacgccaggactttgtcctcgctgtaacaaaggaaatcactgggctaatcagtgccgctcaaaatttcatcagaatggcacccccctgtcgggaaacgagangggggcctggacccgggcccctcaaacaatgagggcattcccagtccagaccacaaccccgtttcagggatgggttcccggaggnacattgattccctcaccccaggaacaccaggaagtgcaggattagatctccccgccagagaaagaattacgttagttggnggagacaaacccaccaaagttcccactggcatttggggacctttaccagcaggatacatgggactaattttaggcaaaagccgccttaacttgcaaggcattactgtagtcccaggagtngttgactccgattatgaaggagaaattcaagtagttttaatgtcacaagatctttgggtttttgaaccgggagaatatattgctcaattattgcttattccctgcaaattacacccttctccacgaaaggagaaacgaggaaataaagggtttgggagcacaactacatgggaaatctatctatccncaacccatagcctctaatagacccacctgtgtagtacaaattaaaggaaagaaattttatgggcttatggatacgggagctgatgtgtcagtaatatctagnaacgactggcccccatcctggcccctgcgattaacttctacatccctagtgggagtaggaacagctcaaagtgttcaacagagtgctgagattttaccttgtcttggtccggatggacagtcatgtacttttcagccttatgttgcaaatatagctatcaatttatggggtcgagacttacttacagcatgggatatgagacttacaaatgaaaactttgataacccaggatttaaaatgttgaaggacatgggatatcagagtggaaaaggtttagggaaattcctacaaggaaaccctaacccgatatcagtaactggaaaaacagatagaaaagggctaggacgtcaggatttctgacgggggtcattgatatttctcctccgcccactgccttaccattagaatggctnagtgacaaacctgtgtgggtggatcaatggcccctancacaggagaagctagntcaacttcatcngctagtaaaagagcaattggatgcaggacatatagagaagagttncagcccctggaattcaccggtgtttgttattccaaaaaagtccggaagatggtgactgctgcatgatttgagagctattaatgcacaaattaaaccgatgggtgcattacagcaaggtctgccatccccagcggccattccaagagactggcctctcgtagtaatagatcttaaggattgtttctttactataccnttacacgagaaggataagcctcgatttgccttctctgtgccttctattaatcaaagagaacctgtttctcgttatcaatggaaagttttaccccaaggcatgcttaacagtcctacgctatgtcagcattttgtaggacgggcattaaaggagcctcggaatatgtttcccactgcttacatcattcattntatggatgatattcttttggccgctcctacagatcaaatcttacatcagttattcagagaaacaaagcgggctttgactaaatggaatctcaaaatngctccagagaaggtgcaaacaacttccccataccantacttaggaactattgttacggagagaagtgtacggcctcagaaagtagttctccgtaaagacaggttacagactttaaatgattttcaacaattattaggggatattaattggctgcgcccgatgctaggtattgctacctatcaacttacacatctttaccaaaccctgcaaggagattcttcnttaaattccccgcggcaactnactaaagaggcagaagccgagttacggcttgtagagcagatgcttcagcagagacatgcctcncggctacagccgcaaaaacctttgcttttgtttattcttcctaccccccactctccaacaggacttttgggccagttcatagacaagtctgtaacagtaatagaatggctctttctacctaatcagtcaaaaccttgcaagtttatctttctttaattacacaaattgtgactatgggcaggcataggtcaaaaatgcttacgggatatgatccngacaaaattattgttcccttagactcccagcaacaggccgcagcntgggaaatgtcgactgcntggcaaatcgctttcgcagacttcgtgggaataatagataaccactatccctcagacaaaattttgcagttttataaagtccattctttcattcttcctgtgattactcatcacaagcctattccaggtggacagacttattttactgatggctcttccaaaggtcgtgcagctatctatggacctaaacatactcaaacaataatgacctctggggtttcagctcaacgctcagagctaattgcagtcattcaggttttacagctcacagcttcagatcctatcaacattgtctgtgattcagcttatgttgtaaatgtagccagtcgcatagaaactgctacaattaaaagtacactagacccagaactgcttaatttgtttctaagacttcanacagctattcgctctcgtgcagctccttttcatatttctcatattcgctctcacacacaacttcctggaccactatctctaggtaatgatagagcagataaactgattggttctgtgtttcagcaagctcaagcntctcnatgcgctactgcaccaaaacacctccgcccttactcgcatgtttcatctgcctcgcagccaagctagggctatngtacaagcctgtcctacttgccagcatgtccctggngccgcacctgtagaaggntgtaacccacgaggtttggctccaaatgaaatctggcaaatggatgttacacacatagcagcctttggcaagcttagctatgttctgtganctatagacacttattctcatatgctgcatgctacatgccaaacaggtgagacagctggtcatgtacggcgacattgtctgtcatcatttgctcatatggggatacctaaacaattaaaaactgacaatggacccgcttatactagtcatgcttttcaaaatttcttacagctttgggctataacccataaaacaggaattccttataatcctagaggacaaggcattatagagcgggcacatcaaacattacaacgcatgttgaaaaaacaaaaagggnggtataggaggccaactaccacctcaatcaaaactacatttagccttatttactttaaattttttngactcctggtacggatggtaagactccagcagaaagacattggcaagtgttagaggaaaagaggaaagtttatccgaaagtgttatggaaatccccggaagaagngacaatggaaaggtccggtggatttactgacgtggggangagggtatgcttgtgtttttacaggagatggacaaaccgtgtgggtgccctcaaggtgcgtgcgaccatggaacgggagactggaggaacccagggtggccaaccatgggcccggtccctccggtacgagccatgagccagctgagcctgagtgcaaagacggagagaaggccgaccggagtcacgacgacatcaacccccataacctggggacaactcaagaaaaccacgcaggaagctgagaaactactggagcgtcagggncaggcaaaaacccctgattccatgttcttggccatgttagccataatgtcctgtgcggtatgttttccctgtgcagaggcaaaaacatattgggcatatgttcccaatcccccagcagtacgacctgtactttggagtgacactcctcctgagatttatcatgatcagggagcgtgggctccaggacccctaactcccctgacantagaacagttagactctcagaacaatgtcatcaattataccgctccactggaaggactccctttgtgtatcaccacaaagacgtcgctcagccgtagctgtcttacaattcaagctcaagcatggttgagtcactatggaaaagtcatgtacttattaggtcttggttctattaatgtaactggtgtgctaaccaaccattcccggcccaatcgccctaattgtgctgactatacggaatggattcccttcaatagttcctaccccccctcncgtggacccagtgtcttggcccactggctagaaaacaatctatgttaactggagacattgtggattggggacctaaaggtcaattagatggaaaagatgaaaatcagaaatcatggcacaaacttcgctggcattggtggcaagcttttaatgcttcttctttatacnacaccgggatccaatcccagtctgccgcccagattgcttggcatggagcaggctttagcccgcctcttcctcagtggcattatctagggaggaaaggaccaattcaagagacgatatggaaggcagcactcccatttacgaatggagcatctgggttngggatactatccaataatagcaatagtaagcgacacagtcttaatgttacatttgtaaagaatatcaccactcaatttacggtttgtgtttttaatccttatgtctttttggcagctaagaaggaccagctccaggtaaacaatacccaattgacctgtaaatcttgccagttatatcactgcattaatcatagcacattgcaaacacataatatctctactttgatgattttgggtcgcatccctgggctatggattcctgttaatctgtccgagccttgggctgccacacctgctttgcattttgtgaaacttcttctaactcagcttactcatcgtgtccgtagagccttaggcatgataatttttgctattgtttccttggtcacactaataacttctgttgtgatgtcctctgtagctttgcatagttctgttcaaacagctcagtacgtggagaactggacgcgcacagccgaccaagcgtggctacttcagaataaaattaacactgagttacaaactgaagtggcaatgttgaaatccacggttctatggttaggggaacaagtacaaagcttgcagttgcagcagcaattgcgttgtcattttaatcacactcatatttgtgtaaccaacttagaatataaccaaagtgagtatccgtgggaccttgtgaaagcccatttgcagggagctttcacatccaacatcacctttgatattggtgaattacaaaacaaaattcttgatttaaataggcaaactcaagagtttcagccttctttagaagactggaccgaattccagcaaggcctggagagcctcaacccttggacctatctaaggcaccacattaacatcttatatgtagttcttggaataatgttgttttgtctctgtcttctgttcatagtctgtaaaatcggatggaccgccaatcggagaatgagagctgcccagcctggccttacattctttcaattaatncataaacagaaagggggata
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 ZNF28 31 28.9 Highly correlated
2 ZNF382 28 99.0 Weakly correlated
3 ZNF766 15 43.0 Weakly correlated
4 ZNF626 14 0.0 Weakly correlated
5 ZNF701 12 28.9 Highly correlated
6 ZFP57 11 87.0 Weakly correlated
7 ZNF2 11 99.0 Weakly correlated
8 ZNF723 11 15.2 Moderately correlated
9 ZNF417 9 28.9 Highly correlated
10 ZNF394 9 99.0 Weakly correlated
11 ZNF18 8 160.0 Weakly correlated
12 ZNF320 8 28.9 Highly correlated
13 ZFP69B 8 99.0 Weakly correlated
14 ZNF589 7 28.9 Highly correlated
15 ZNF584 6 99.0 Weakly correlated
16 ZIM3 6 87.0 Weakly correlated
17 ZNF695 5 28.9 Highly correlated
18 ZNF92 5 28.9 Highly correlated
19 ZNF175 5 94.0 Weakly correlated
20 ZFP37 3 99.0 Weakly correlated
21 ZNF679 3 28.9 Highly correlated
22 ZNF222 3 43.0 Weakly correlated
23 ZKSCAN8 3 160.0 Weakly correlated
24 ZNF816 3 28.9 Highly correlated
25 ZNF479 3 6.4 Weakly correlated
26 ZNF534 3 19.6 Moderately correlated
27 ZNF197 3 99.0 Weakly correlated
28 ZNF140 2 99.0 Weakly correlated
29 ZNF680 2 28.9 Highly correlated
30 ZNF716 2 19.6 Moderately correlated
31 ZNF735 2 28.9 Highly correlated
32 ZNF786 2 99.0 Weakly correlated
33 ZNF528 2 43.0 Weakly correlated
34 ZNF793 2 99.0 Weakly correlated
35 ZNF425 2 94.0 Weakly correlated
36 ZNF880 2 28.9 Highly correlated
37 ZNF263 2 180.0 Weakly correlated
38 ZNF778 1 74.0 Weakly correlated
39 ZKSCAN1 1 160.0 Weakly correlated
40 ZNF823 1 43.0 Weakly correlated
41 ZNF705B 1 28.9 Highly correlated
42 ZNF133 1 99.0 Weakly correlated
43 ZNF160 1 74.0 Weakly correlated
44 ZNF682 1 28.9 Highly correlated
45 ZNF674 1 99.0 Weakly correlated
46 ZNF671 1 94.0 Weakly correlated
47 ZNF317 1 99.0 Weakly correlated
48 ZNF610 1 28.9 Highly correlated
49 ZNF605 1 99.0 Weakly correlated
50 ZNF587 1 28.9 Highly correlated
51 ZNF563 1 28.9 Highly correlated
52 ZNF554 1 99.0 Weakly correlated
53 ZNF519 1 19.6 Moderately correlated
54 ZNF460 1 74.0 Weakly correlated
55 ZNF441 1 43.0 Weakly correlated
56 ZNF248 1 99.0 Weakly correlated
57 ZNF284 1 43.0 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 ZNF626 13 0.0 Weakly correlated
2 ZNF723 11 15.2 Moderately correlated
3 ZNF28 7 28.9 Highly correlated
4 ZNF320 6 28.9 Highly correlated
5 ZNF417 4 28.9 Highly correlated
6 ZIM3 3 87.0 Weakly correlated
7 ZFP57 3 87.0 Weakly correlated
8 ZNF701 3 28.9 Highly correlated
9 ZNF695 3 28.9 Highly correlated
10 ZNF816 2 28.9 Highly correlated
11 ZNF793 2 99.0 Weakly correlated
12 ZNF479 2 6.4 Weakly correlated
13 ZNF735 2 28.9 Highly correlated
14 ZNF382 2 99.0 Weakly correlated
15 ZNF674 1 99.0 Weakly correlated
16 ZNF554 1 99.0 Weakly correlated
17 ZNF766 1 43.0 Weakly correlated
18 ZNF534 1 19.6 Moderately correlated
19 ZNF679 1 28.9 Highly correlated
20 ZNF18 1 160.0 Weakly correlated
21 ZNF680 1 28.9 Highly correlated
22 ZNF587 1 28.9 Highly correlated
23 ZKSCAN8 1 160.0 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 ZNF320 28.9 Highly correlated
2 ZNF626 0.0 Weakly correlated
3 ZNF723 15.2 Moderately correlated