ZRdb KZFP & Repeats
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LTR_HUERS-P1

  • Name
    HUERS-P1
  • Repbase
    HUERS-P1
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000214
Description :

Originally, a consensus sequence of the 856-bp 5'-terminal part of theinternal portion of HUERS-P1, an LTR retrotransposon with LTR8 longterminal repeats, was obtained. It was reported in 1998 that theremaining portion of HUERS-P1 is related to the MER4-group. At that timeonly 10% of the human genome was sequenced and it was not enoughsequence data for an accurate full-length consensus sequence, which wasfinally derived in 2008 from the completely sequenced human genome.HUERS-P1 has Pro tRNA related PBS analogously to MMLV, HERVR (BaEV),HUERS-P3 and HUERS-P2. It has 4 bp target site duplications like all theother members of MER4-group.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
aatttgggggctcgtccgggattgcccttgtggctacctgcccgtggttcggtagcccccctccggcgatggatccagaggccagcccaagcggccgcctagttctcttggactgggggctgactctggtactctctctactggcggggcgctgccgacccaatgtgcatggatttaattgcaatggagaaatagtcctggggagacgtcccntaactgtagccctatcacagggtgtctgtctgtagccccatggtggggtgtctgtctgtagccccattgcggggtgtctggattggtgagtatcctaggcgctgccaacgcctccttccttctcccgactggtttgtagccctatggtggggtgtctgtagccccattgcggggtgtctgtttgtagctccaccatggggtgtctgtgtctgtagccccattgcggggtgtctgtttgcagctcctggggggtctcggttggctctccctaactagtaggaagagtcttggttcgggagacttctcctcaatcaggaagatttcggggaggtttctcagacggagaataggaggatagtttggaagggatactcttggagttcttggttagggatctgatttggaaggccttctgtccgtctcgtctttgtgtgtgtttgtatatgtggaggggatctcngaaggaattgctgatggaagtccagcaggcctaactcagagaaccctccttatttgtctggtcacattcggtgagccctgaagaaagctcaacaggcctgnctcggggtgactatccgctcttcgccttgcccagagaccccattgtgaattaccgttcggaggtcatccctccccacctggagtggatcaaagacaacagggaccaacgggaaaaagtttgagctttgccaggtcgatattgggtgctgaacgaggtgactagtgtctgttttgttatgtgtattttgctgggatggaaaatgttaattcggttccccatgcagcccgttgggcagcatcttgcaaattgagaatcttgcctatggttccataaaacagaaaagggtgattttcttttgtaaagtggcttganccccacagctatggcgcangcgagcagggtcatcagaagccgctccgttcttctggaagctgcagagaaagggaacccggaaacctggtatgccggcaaaaagggtaagaaattcttaccagccaagtttctggtctctctctctctctttctctgtctgngtaaaacggtaaactatttgtctcctctgcaagggtttgattaatagaaaaaaggatttgtgagactagtcttaggctgtagcaaatctggtgtactttgtgctaagaatttgtctttctgtgttctgtaatggagagaggggtatcacaggatagaacgtgggtttaggacccctataagcccgcttttcaagccagcccggcaggctggtcagttacaaactttgctgcgggtccctgaaaccaataccggatgaaatttctctgtcttgttttgtgtccttaagagcttaaccttgtgaccatgtggggatactttctcttggtttccgccatccagaggacaggaattttggggttcatgtcatagttagccctaaaaattntncttgagcagttaaaagcctttgcaagcttgaaattggctnctctaggctccttctgggaaaagcaatagaaactgctcaatgctgtatagctcagtagctaaggctttgtcttttgacaatggcggcccgggttcaattcttggcttccggaatgattcctttctggtttgttatttgtgtaactttgccatttattgaggtttcttccccccatggatagcttctgatttcctgtcttgaattttcctttctctgaactaccttggggagattctaaatcttgtaaaaaagaaactgcttaccatntctttgaagcacctgggaggttacctttggtaaagttcaaaagccagaaatattggccgcttggcatggctaaagtcgggtaataagagatttaaaaggatttcttttttaaagagcgctatggttaaaagtcagcttaattaaaagtggatanncaagctataggtatatttaaaaggcctttatgtttttctcttcttggatcttgtttttctggaaaaaggttttttcttctcagtcgactgaattatttttctccattttttcgtcttgccactcttaatgcacacatgagaggccctaagataacttctggtagcctgggactccttgggaaaaacagaggaggcgccacagaccccgttttgggaaaaaaannncctctgttttcctcatggaaccccaggaattaaaagcggatagatccctctcaaaatcnaaggctctgttctgttttgcattgtgttatctgacggttttgagttttgggggtatcagaaattacttcgcattatgagagagctttggtgtgtaataactaggtaggaaatatactttaagggatggctaatggcagttatggagggatacttggctctttgcacgcttggatcagagaagcatgctcttggccacctggaagatatggaaacatccccaccccccactgagagatgagactcccatgggggatgggctgattacaaaatgggctgattggctttgggttgccttgcaatgaaatgcanggtagaagcactgcactgtcttctcccgtagtatttccctccttttggggatccaggatccggtataaaatggcacccttaattttggggatctgtctttgccttcagctgnntnnttgctgcttattaggccctagaaatgcatgctttcctggccctgttcctccaagggctccaccctgaagccagtaatccaattaagaaactggcaaatgaaaaatcttacaantgctgaatcttctgtctgtgtgtatttatatgtgttgtatgtttatatataaaagagctctgattaattggcttagaaaaataagcgcttaaatcaaatattttgtcagaaaaatagaaactttaatgccttttngttcacgtgactttagtaatcttttggaaataaagacagttttaaagattattggtaaaataaaatgtcttcaaaatntagacatttggtctaaattaaggtcagatatcaggtttgctaaatgctttaaggtcaaactgcttctttgacttttgaaaattgttcgatttacctactttggagcattagattctagataaggcctggggacatgtggagagccatgccccctagctatgctgaaaagagtcagaccttatctncacttctgtctgatgtcctaggctccacncctagtacataattaaaatcgcttacttatcaggtttttcaccaaaaataaaagttgctaagagttaacattgtaacatgtaattgagactactggagaaacagttttacatacaaggtgtgtagggaatgtgtttttggtaaaagattataagaaggcatgggaatatggcttttgttaaagggaatgtaattttgtctagttcagagggttttaaagattgtcttaacctaaaagagtaatgggacaaaactgaaggtttaagcaagntgaaaagggtttgtgaagggttgatcttgtaaaaaaagttctgtgggtatgaacaagttggctaagatttgaaggggattatttagctttttttccgtaggttaaaacattaaaatcacactgatgcggggccagaatctgggcccatgtgtccgaataacagggttttcttagaaaattgatctgctgtttaacggaaaattgtaaagggttctaaaaagtttatgaaaatcttaccttatggtcaaactaattaaaactggatagatttataaaattttatttaaaaactagctttaacattaaagatgcactaatgcaaacatgaaatttggttttctcttttgaagangatttttatgtaatattaaaagataatgaaaggnttttgttttcccctttgggtaaacggcagggaaaaaagggaggagagagagaagagacagattcagttggcctcatgctatcttcattgggtcttgtttggaaagctaagtctcctctatcagagtaaaggtttttcttttttaaaaanatttttggagttatcattttggccaaatgaatgacttatggtgacctgggattctattttgtgatatccagtgttttaaacctttgatatttgacaaactttccaaaatcaaattataaattatgtctctttctgacctaatnttttagatattaggtcctctaaagtccaaaaatgacatttggcttatttggtataaaaatcatacaggaagcattgtcaaatatgaaatggtgtttggctttctttgggctatatttgtgtaaatgtgttattggtatatgttccaaaattatgtaaaactcctataattctaatatgacttagtatatgttatcagtaataattataattattatgttaaatnactgtgtgccacagaggtaacaaatttccttgtcaattgtgtctttaactgtggctgccctaaaacgtttttgtcatccacagacaattgttgtctcgttttggtcctctttaaaagatggttttataatcagctataaaatttaacaggtgctcttaaatgcaggtttctgattaataacttggagattgtgacattagaatagaggaaaaaactttcaaatagaagagtgaatggtgtttggttttctttgggctgtatttgtataaatatgttattagtatgtgttccaaaattatgggaaactcctataattctgatatgatttagtgtacgttattaataattataattgttatgtaaaattgttgtatgccacagaagtaaccaaaattcctagtcaattgtagctttaatagtggctatagacttttgtcatccacagacattttgtcttgctttggtccttttcaaaaggcggtttataatcagatataggactctgagtgcaggtctcngataactttaaaaattgtgctattgcaaacttctaggactctcatggagagctgatgtgttaaacattgctaatccttttgttttcagagtcaagaaaacttatttctttngagctatttgcaacttttaacaantgagtaaaatatactcctgtgaacaaaatttggagcatatttgtttctctctacctgatttctccagaatttggaaactatttgtgagtattctcaacttatggcagtatagttatttgcataagtgcaataagaatctgttttcttttgtaacaggacacaattggagaaactggttattttaccaaggctttgactggaatggcgtgcttcctttaaggaatcaaagttgacttatagagccaataaaagccccttgggaaanctggcctcataccttgtctacacagngtccctgtacagggttcctgacctgtggtaagtaaagaatgtcactttctaacaggcccaggagccccaagttatcttgggacctcaagaggagaggaatttacccaactcataggtatttgagggtacaaacccatggctgggctcggctttnaaaaagtcttatctgagattcctcatggaacagagttccatcaaagccaatttaaaaagcctangtgaaaaataattattcttgctgcactttatgcaaataatcaggccaagtacagtaagactaaagtttattttgtaaacaaatcagttctatcatgatttgtttttaataaaaatggggactggagagagaaaaattatgcttcaaaagaaaaactatagtacacctgttgttagctgttcttgagnttttttctgcagtttggactaaatcctaaattctttgtgggctacaagtccccaaactaatgctttcaaatctttacttttaaaactgggaattgcactccttatcctagnactcattatttaccttatagtacgctgttcncttaaatgctgtactaaaactatagatganaatactaacgcctttgccatgcaagccttggaaccccagccaggcctgcatgagtacgctcagacagttgcaaagcggttccactcctctcaccttggggtcaacncctacccccactacgccccctgtcagcaggaagaagccagagcgatcgncggccttttcccatcttcatagccnacaccttaagattaaggtgttataaaacccaaagggagggat
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 ZNF486 72 8.6 Weakly correlated
2 ZNF506 45 28.9 Moderately correlated
3 ZNF43 30 43.0 Highly correlated
4 ZNF382 21 99.0 Weakly correlated
5 ZNF534 19 19.6 Weakly correlated
6 ZNF589 17 28.9 Moderately correlated
7 ZNF175 16 94.0 Weakly correlated
8 ZNF766 16 43.0 Highly correlated
9 ZNF793 15 99.0 Weakly correlated
10 ZNF823 14 43.0 Highly correlated
11 ZNF584 10 99.0 Weakly correlated
12 ZNF680 9 28.9 Moderately correlated
13 ZNF197 7 99.0 Weakly correlated
14 ZKSCAN8 6 160.0 Weakly correlated
15 ZNF85 6 28.9 Moderately correlated
16 ZNF679 4 28.9 Moderately correlated
17 ZNF669 4 43.0 Highly correlated
18 ZNF554 4 99.0 Weakly correlated
19 ZIM3 4 87.0 Weakly correlated
20 ZFP57 3 87.0 Weakly correlated
21 ZNF485 3 94.0 Weakly correlated
22 ZNF394 3 99.0 Weakly correlated
23 ZFP30 3 99.0 Weakly correlated
24 ZNF140 3 99.0 Weakly correlated
25 ZNF667 2 99.0 Weakly correlated
26 ZNF597 2 94.0 Weakly correlated
27 ZNF324 2 99.0 Weakly correlated
28 ZNF211 2 94.0 Weakly correlated
29 ZNF677 2 99.0 Weakly correlated
30 ZNF263 2 180.0 Weakly correlated
31 ZNF490 2 43.0 Highly correlated
32 ZNF479 2 6.4 Weakly correlated
33 ZNF701 2 28.9 Moderately correlated
34 ZNF317 2 99.0 Weakly correlated
35 ZNF320 2 28.9 Moderately correlated
36 ZNF700 1 28.9 Moderately correlated
37 ZNF695 1 28.9 Moderately correlated
38 ZNF730 1 19.6 Weakly correlated
39 ZKSCAN1 1 160.0 Weakly correlated
40 ZNF682 1 28.9 Moderately correlated
41 ZNF101 1 43.0 Highly correlated
42 ZNF133 1 99.0 Weakly correlated
43 ZIK1 1 87.0 Weakly correlated
44 ZNF816 1 28.9 Moderately correlated
45 ZFP69 1 99.0 Weakly correlated
46 ZNF585A 1 99.0 Weakly correlated
47 ZNF610 1 28.9 Moderately correlated
48 ZNF605 1 99.0 Weakly correlated
49 ZNF18 1 160.0 Weakly correlated
50 ZNF251 1 94.0 Weakly correlated
51 ZNF549 1 87.0 Weakly correlated
52 ZNF547 1 74.0 Weakly correlated
53 ZNF257 1 0.0 Weakly correlated
54 ZNF273 1 28.9 Moderately correlated
55 ZNF284 1 43.0 Highly correlated
56 ZNF44 1 43.0 Highly correlated
57 ZNF441 1 43.0 Highly correlated
58 ZNF28 1 28.9 Moderately correlated
59 ZNF425 1 94.0 Weakly correlated
60 ZNF418 1 43.0 Highly correlated
61 ZNF337 1 43.0 Highly correlated
62 ZNF334 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 ZNF506 39 28.9 Moderately correlated
2 ZNF43 31 43.0 Highly correlated
3 ZNF793 10 99.0 Weakly correlated
4 ZNF534 10 19.6 Weakly correlated
5 ZIM3 4 87.0 Weakly correlated
6 ZNF85 4 28.9 Moderately correlated
7 ZNF486 3 8.6 Weakly correlated
8 ZNF669 3 43.0 Highly correlated
9 ZNF485 2 94.0 Weakly correlated
10 ZNF175 2 94.0 Weakly correlated
11 ZNF680 2 28.9 Moderately correlated
12 ZNF394 2 99.0 Weakly correlated
13 ZNF597 2 94.0 Weakly correlated
14 ZNF667 2 99.0 Weakly correlated
15 ZNF197 1 99.0 Weakly correlated
16 ZFP57 1 87.0 Weakly correlated
17 ZNF816 1 28.9 Moderately correlated
18 ZNF695 1 28.9 Moderately correlated
19 ZNF273 1 28.9 Moderately correlated
20 ZNF140 1 99.0 Weakly correlated
21 ZNF133 1 99.0 Weakly correlated
22 ZNF766 1 43.0 Highly correlated
23 ZNF823 1 43.0 Highly correlated
24 ZNF101 1 43.0 Highly correlated
25 ZNF28 1 28.9 Moderately correlated
26 ZNF320 1 28.9 Moderately correlated
27 ZNF677 1 99.0 Weakly correlated
28 ZIK1 1 87.0 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 ZNF43 43.0 Highly correlated
2 ZNF506 28.9 Moderately correlated
3 ZNF534 19.6 Weakly correlated
4 ZNF793 99.0 Weakly correlated