ZRdb KZFP & Repeats
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LTR_HERV4_I

  • Name
    HERV4_I
  • Repbase
    HERV4_I
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000172
Description :

Associated long terminal repeat includes MER51A.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tattttggcgagccagccaggaggtaagcccaaagtttgggatttatttttctctttttcctctttctctctctcttttcctttccaactcgggaccctcggtggacagcgcctaagcacggaggcaactgcaggtttctggccggggccactctccggtgaaactgaaaggtttccgtgtggaagcgcctgaccgccaccgcccggttcgggtgagggacctgagtccttttctttttcagtctttcagcggccgtttcctagtagctccttggtaattgagggcaactggccggggccactctccggtgttacctgaaggccaaggagtgaacggggatagctgccctgcccggaagggggaaggactcttttctatcttttccggttatagtccctgatccctacgtgtgacgcaattggcagcggcagctcgtccagggcgaactcacacacgtttcaggcgacttaaaccttcttttcttatgctaaattcttcccttcccctactcgactggctaaggacaagtcagagggtccgggcatgtcgtagatggtctgtgtgagtcatggggaggggattcatgaaagggaatttatgtacaatttaatcttgcctaaatttagagagttaaaggattgttttaagtgggataggaaaaaaaatccaaaggtttgactgaaagttaattctagaagtcgaggccttcatccagggacaagagggaaagctcatagtaggtcatcagtggtggagggaaccattccaaagcggtgccggcacccatctaaggtcagagacgtctgacagactaagacggggccctaaaggggggacgcccccggggaccccagtcngggcccagaatttttccagggggatgccccgggtaaaatttgggtcacctaatgagccctccacttttcaaagtcctcttctcttttccagaccactatgggcaactctccatctattccacctgattccactatgggcaactctccatctattccacctgattccccgcttggctgcatcctcaaccattggaatcaatttgaccctgacaatctaaggagaaaacgtntgatttttttctgcaatactgtttggccccantatnagctgnncagccaggaacaatgggcggtcaatggtagccttaattatgacaccatcctgcaattagacctattttgcaagaggcagggcaaatggtcagaaatcccatatgtacaggccttcatggccctataccaaaacccaacaatctgcaaaactcccagaacccgccccccaaaggaaagtcctaaggcagaactagatattgtagatgacccccttttacaagggccacctgtctctcagggngaacagcaaccgcccccatatagccccttgccaagtgctcctgaggctaaaacccaggagcaaacaccggggaccctactaagtccccctcacactcggaggggaacaccntattcaactctccctccagccctgctaccccttagggaagtagcaggagccgaggggccagtccgagtgcaggcccccttctctataactgatatacaacaatgtaaggaaaagctaggaagctattctgagaaccccgggaaatttgcagatgggttccaaactttgaccttagcctttgatctctcatggagagatgttcaattcattctagcaacctgttgcaccccctcggaaaaggaacgaatctttgaggccgcccgccgggaagcggacganttattcgcccgaaaccctcagggcaatcacccgggcccagacacagtccccactactgatcctaattgggactataacacccccgtgggaatgaacaaccgggctaaatttcttgaggctctccttggaggaatgagaaagggaataactaaggcagtaaattatgataaagtaagggaggttacacaaggcaaggaggaaaatccagccatgttttatggcaggctggaggaagcctttaaaaaatatacnaatctggacccttcctctcccgaaggcaaaatattaatggcacagcatttcattagccaatccgccccggacattagacgtaagctccaaaagctacagatggggccacaaactaatcaaaatcagcttcttgataccgcctttatggtgtataacaatcgtgacctggaggaaggaaaaagggaacagagtaaagaaaaacggcaagccaaaattatggcagccatcattggcgatgccctgaatgcccaaagagcgtccaagggaaacccgaagggccataaggataatgccagcaaaggctcttgcttcaagtgcaagaaaaatgggcattgggcaaaggactgtactaagcccccgccaggcccctgccgtcaatgcgaaggcaccagtcacgacccctggcactggagaattgactgcccccgctcccaccgaggggctcagtcagtcaaaactctagcagtgcaaaaggaggaattagatgaagactgaaggggcccggggccttcctcaccgcccctgtccaggaacatcgtnattactactgaggagccccgggtaactctggacgtcatgggcacccaaattcagtttctttttgatacaggggcaaattactctgtccttactgcttatgcaggaaaactttcctcccggtccacgagtgttatgggaatggaaggaaagccacaaacaagattctttactcctcctttgacttgtcaatttgagaaacaaatcttccaacaggaatttctagtagtaccaagctgcccagtccccctgttgggaagagatattatggttaaaataggggcactgctacaatttaagcaccgcccggcgaaattgctaatagtcagnaatgcagacaatgtcccagaccacgttaataaacaggtcaacccgctggcatggtatactgggaaaccggggaaggctaaaacggcagtgccagtcaaaatacagcttaaagaccccagctattttcccaatcgaaaacaatacccaattaagctggaagcaagaaaaggcctagcacccatagttgaggtattacttacccatggactcttaaaaccctgcaattctccctgcaatacccccatcttacccgttctaaagccttcgggggaataccggntagtacaggacctcagaataattaatgaggctgttatccccgtccacccattggtggcggatccatataccctcctggctcaggtgccaggggatgcaaaatggttctcagtcctagacctaaaagatgctttcttctccattcctctggccccagagtcccaatacctttttgcctttgaatgggaaaatcctaataccagagaaaaacaacaatacacttggacagtgctccctcagggctttcgggatagcccccatttctttgcccgagccttagagagggatctgagggatctgcaattggagaatgggagtatactccagtatgtggatgaccttcttgtgtgtagcccaacccaggaggcttctgaccaaaatactataaaaactttgaatttcctggcagacaggggatacaaagtgtccaaaaagaaggctcagattaccctccaacgggtccaatatttagggtatgtcttaacacccggagcccggcaaatatccccagaacgagtgcaagccatatgtggtttggggcccccccacaccaagcagcagcttcgttctttttngggaatggccgggttttgcagaatatgggtaccaaattttgggctcatagcaaagcccctntatgaagcaacaagggggcctgaaaatgagctaatggaatggaccccggaaatgagggaagccttcgccaagttaaaacaggctctcacccaggctcccgctcttggcatcccagacctnactaagcccttctccttgtatgtagcagagaagaagggcatagctgtgggagtgctagcccagaaattaggatcagaacccagaccaaccgcctacttttcaaagaagttggacggagtggcctcggggtggccaagctgcctgcgggcaatagcagccactgctattttagtggaggaagccactaaaatcaccctgggtcaaccactggaagttctaaccccncatcaggtaaagtcagtcttagagataaaaggacacatctggatgacgggggaaaggttaaccaaataccaggccatgctcctagacaatccagatgtaacccttaaaacctgtaacaccttgaatccagcttcattgctgcccacaggcccaataactgatcattcctgcgagcaggtcatcgcacacacatatgttagccggcctgatttaaaagatcagcctctcccagattctgaggatgactggttcacagacggcagtagttttgtgtcaaatggggagcgccgagctggatatgcaatagtaaatcacaacaccattattgaagcccagccactgccccctggcacatcagcacaaaaggctgaaatcattgctcttacccgagcattaatgttgggacaagggaaaaagcttaacatctatacagattctaaatatgcattccttgtggttcatgctcatgctgcaatctggaaagaaaggggactactaactagcaaacactcccccataaagcatgggcctgaaattcttcagctattggaagcaatacacctgccaaaggccgtagctataatccattgtagggggcatcaaagggacttaacccctatagcacaagggaacagaaaggctgatagagaagccaaagccgcagccctcagggtgcaatcccaacagatcctagcactgcttcctttctatgattccccaatagaacctgaatacacaccacaggaagaacagttaataaaggagcaagggggacaaaaacaaggatcctggtggtatatgggatcaaaagtatatctccctcaaacagcccaatggagagttataaaaaccctgcatgactctttccatatggggagagatgccaccctggccatggtaaacaggctcttcattgggcctaacttagcttcggtggttaagcaggtctgtcaagcctgctcactgtgtgcacttaacaacccaggaaacaaaatgcctcctctaatagaaccagtccagaggagaggaacttacccaggggaagactggcaattagacttcacccatatgccagcttgcagaggatacaagtttttgctagtactaatagacacctttactggctgggtcgaagcttaccctaccagaacagagaaggctaatgaggttataaaggttctcttaaaggaaataatcccccggtttgggttaccccagagcctccaaagtgataacggcccgtcctttatctcccaaataactcaaggggttgctaaggctctcggaatcaaatactatttacattcagcatggaggcctcaatcctccgggaaagtagaaagggctaatcaaactctaaaacgggcgttagctaagctatgtcaggaaacatcagaaacttgggtcagcttactgcccatagccctcttaaggatccgtaatncccctagagcaaaaattaatatgagcccatatgaaatgttatacggaaggccatttttaactaatgatctaattactgatccagaaacagccggtttagtaaaatacctagttaacctgggacaatttcagcaggctttacaaaagtttggaactcaaaggctccccacaccgggaactaaccagcaacccaaaatcaggccaggagataaggtacttgttaaaacatggaaggagggatcacctgctcaacaattacaacccaaatggaagggaccgttttcagtggtactggccacgccttctgcggtcaaagtactaggattagatagttggatacatctttccagggtcaagcctgcgatacctgaagccccggacctggaacctgaagctcccatcagccactacacctgtgaacctgtggaagacctgaagtacctgtttaaaagacagccaaaagataagtaaatgcctaccaactttccttggtgtctttgttgcatagttactgtaggctggataatagtagccatttttannnntatttttgcagtttaattgccttcttccaaacggatggaatcacttcctttgtaataattaagcagaatgttttaattcatctctataacaaacattcctgacagcataggtatccaccccctgaagttcccattaaatcttttaaccaaattcatttcctctcgcctagagaccatcaagcttcagatgatcatgcgacaaggnttccagccagttccaggtgaagacaccacccctggccatcaagaagctaccctgtctccactagacagagcagggcgagagttccgtgatccccaataggtagggactacgccccaagtcagcatgaagcagttacagaagaaagaccatcggtccctctgcctcccataaagatttatggggatcacgtctctcaggggggaga
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 ZNF723 22 15.2 Weakly correlated
2 ZNF479 16 6.4 Weakly correlated
3 ZNF382 15 99.0 Weakly correlated
4 ZNF558 11 99.0 Weakly correlated
5 ZNF101 11 43.0 Highly correlated
6 ZNF680 10 28.9 Moderately correlated
7 ZNF547 9 74.0 Weakly correlated
8 ZNF394 8 99.0 Weakly correlated
9 ZNF766 6 43.0 Highly correlated
10 ZNF324 6 99.0 Weakly correlated
11 ZNF506 5 28.9 Moderately correlated
12 ZNF2 4 99.0 Weakly correlated
13 ZNF486 4 8.6 Weakly correlated
14 ZNF610 4 28.9 Moderately correlated
15 ZFP69B 4 99.0 Weakly correlated
16 ZNF141 4 43.0 Highly correlated
17 ZNF30 3 94.0 Weakly correlated
18 ZNF140 3 99.0 Weakly correlated
19 ZNF695 2 28.9 Moderately correlated
20 ZNF534 2 19.6 Weakly correlated
21 ZNF528 2 43.0 Highly correlated
22 ZNF519 2 19.6 Weakly correlated
23 ZIM3 2 87.0 Weakly correlated
24 ZNF429 2 28.9 Moderately correlated
25 ZFP37 2 99.0 Weakly correlated
26 ZNF735 2 28.9 Moderately correlated
27 ZNF350 2 99.0 Weakly correlated
28 ZNF18 2 160.0 Weakly correlated
29 ZNF679 2 28.9 Moderately correlated
30 ZNF263 2 180.0 Weakly correlated
31 ZNF248 2 99.0 Weakly correlated
32 ZNF792 1 94.0 Weakly correlated
33 ZNF879 1 99.0 Weakly correlated
34 ZNF425 1 94.0 Weakly correlated
35 ZNF701 1 28.9 Moderately correlated
36 ZNF597 1 94.0 Weakly correlated
37 ZNF589 1 28.9 Moderately correlated
38 ZNF92 1 28.9 Moderately correlated
39 ZNF554 1 99.0 Weakly correlated
40 ZNF549 1 87.0 Weakly correlated
41 ZNF445 1 99.0 Weakly correlated
42 ZNF28 1 28.9 Moderately correlated
43 ZNF264 1 99.0 Weakly correlated
44 ZNF257 1 0.0 Weakly correlated
45 ZNF202 1 160.0 Weakly correlated
46 ZNF197 1 99.0 Weakly correlated
47 ZNF182 1 99.0 Weakly correlated
48 ZNF17 1 69.0 Weakly correlated
49 ZNF133 1 99.0 Weakly correlated
50 ZKSCAN1 1 160.0 Weakly correlated
51 ZFP57 1 87.0 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 21 15.2 Weakly correlated
2 ZNF479 11 6.4 Weakly correlated
3 ZNF141 4 43.0 Highly correlated
4 ZNF101 3 43.0 Highly correlated
5 ZNF735 2 28.9 Moderately correlated
6 ZNF695 2 28.9 Moderately correlated
7 ZNF528 2 43.0 Highly correlated
8 ZNF429 2 28.9 Moderately correlated
9 ZNF534 1 19.6 Weakly correlated
10 ZNF202 1 160.0 Weakly correlated
11 ZNF257 1 0.0 Weakly correlated
12 ZNF140 1 99.0 Weakly correlated
13 ZNF324 1 99.0 Weakly correlated
14 ZIM3 1 87.0 Weakly correlated
15 ZNF558 1 99.0 Weakly correlated
16 ZNF263 1 180.0 Weakly correlated
17 ZNF766 1 43.0 Highly correlated
18 ZNF264 1 99.0 Weakly correlated
19 ZNF547 1 74.0 Weakly correlated
20 ZNF597 1 94.0 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 ZNF479 6.4 Weakly correlated
2 ZNF723 15.2 Weakly correlated