ZRdb KZFP & Repeats
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LTR_HERVK11

  • Name
    HERVK11
  • Repbase
    HERVK11I
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000189
Description :

There are two major subfamilies of HERVK11. HERVK11 is the internalvariant found flanked by long terminal repeats: MER11A, MER11B andMER11C (producing 6 bp TSDs). The other internal variant is HERVK11D,and is found flanked by MER11D. HERVK11 encodes 4 proteins: gag(~156-2297), protease (~2063-3082), pol (~3037-5785) and env(~5624-7951).
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tctggcgcccacgtggtctttcttttttcctaagtgcatgtgggaacccgattccctttggtaggtgcggagaaacgtcatcggtccggtccacagaaacgcttgttcggctccctgacgactggtgagtngtctgtgtattgtccgggntaactatgggtcacgcggagtctaaacattatgcttatctctgctatattaaactcctgttaaaacagggaggngttcgagtgcccatggaaaatatggtcactctattcagggcggtggaagaacactgtccttggtttcctgaaaaaggaaccttagatgtagaactatgggatcgtgttggtgcaanattccgggaactggtcccgacagggaattatgttcccgtcactgtttggggtgattgggccttggtacgtgccgtcctaatgacataccaatcccgtgaccccctgcagttaccacagttttctgaatctggcgaccctccacctcttcctcagccttcctctcccgcncggccttcgttatctgatcagcctctcccttcgcctactcctcccccacctgacgatgttgagaattcaatatctaactccggtgactttggcttaacgtcaccccctgatgatcttatttcttttcacgaagagccggtacttgtagctcccgcggccccgactcggacagcccgggaccatatntatgctaattcttccctcttcaaacctttgcagcctttgcctccggagccacctaatggctccgggaccaaactacaatttacctgtaattctgcaggccctcccccatccaccgcagcccctcaccctcctgtcgtttcggttcctcaaccggtcactttgccatccactcagcctgcttctctgtacccttcttcacacatggacgccagtaatcaccagtatgcttctgcctcttctgctcccccaatgcccctttctcacactctcatnccggtccgaccccctcaacctcagtttcccttatctacacatgcttttcctgtcacttctatgccgactccgtctcaggtgcctgctcttgaaacttcnatgcaacgcttattacgccaaaacaaagaaacaagtggattagangcgtgggcttatccggtcgcgctggaacctcccaacgcccaaggggtacaagtgcgtcgntatgcgccgctcaatcttacctttttaaaagaatttaaggatgcttgtactcagtatggtcctacttctccttatgttaaaatggtattacaaactttttgtactgaggtcattttgcttcctttagactgggaccttttggcaaaagctgttctaaccccatctcagcatttacaattccgtacctggtggtcagaggaggcccgtctgcaggctcagctaaatcggactaatggcattctaattactcaggctcagctcacaggctccgatagtttctctgatacttatgcccaattaggctttgatgctcttaccacggaacaagtaacaaaggtgtgtatgagagcttgggataaattacgcgccccaggccaagctcctgtttcttttactactgttaaacaaggtcacantgaattataccctgattttttggctaaattacaagatgctgttgaaaaatctgtctctgatgagcgcgctcaaggtattctccttcgtatgttagcttttgagaatgcgaaccatgagtgtaaaatggccatgcgttccgtccaacgacaaaatttacctgatcacgaggtgttgcctgcatatattaaagcttgtgaaggcattggatcaganacccacaaagctattctgtgggcacgggccatgaaggacggcaatcaaactggcccnactgattcttttcttggagcctgctataattgcggtcaacttggtcatactcgaaaaaattgcactgttaaaaacttaaaagcggccaagccggctcaacaaacacggccaaatgctgctgctactgtttgcccacgttgtcgcaaaggtaaacattgggcaagtacttgccgctctaagtatgatatagatggaaaccccctgccacagaaccagggaaacgggaagcggggccagtcccaggccccaatatcaaatgggacgcctcagactcagaccaacgttgcgtttccgcttcaggcggtcccaacgcagcccccagcacaaacaaatttacctacagccaacccagatgggtcccagcctcttcttctgtctcagtacaatgcttgtccacctccacagtagggggcggggcggtcgatctctgtagtaccattcctctaaatttactacctaattctttgcctttaattgtccccacgggggtcactggccctttacctcaaggttcggtgggcctggtgttaggtagggcatccacctctgctaaaggaatcaccgttcatactggtctcattaattctgattccnctgatgagattaaactnatcgtgtctgccaaggttcctgtttccattccggccggtgagtcaattgctcaattgcttttactacctaatatcgttttaaacaaaggagataagacacgtggccctgggatgggctccggcggtgaaaaggccgcttattggattaatgtaatttctaaacaacggcccacctgcaccatacacattcaaggaaaaaagtttgagggcctagtagatactggggctgatgtttctattatttcctctagtttatggccttcctcctggcttaaacatcccgctaacatgggactagtaggtgttggaaaagctgatgaagttcaccagagcacatttatcttgccttgcactggccctgatggtcaaaagggtacaattcagccttatatcacgccaatccccattaatctttggggtagagatttgctggcacaatggggggctgaaattaatattccacataactcttatagtgctcccagtcagcatatgatggaaaacatggggtttgttcctggactcggtctcggtccaaaacatgaagggattactaaacccctcccagttactgtaaaagaagacagggctggtttaggttatcctttttagtggcggccgctgccacgcctcctgatcctatccctttacaatggaaatctgacacacccgtttggattcagcagtggccgctttctaaagaaaaactggaggctttaactcaattggtttctgaacagttacaacttggaaatgtggaaccttctctttccccctggaattctcctgtgtttctagtaaaaaagaaatcaggcaagtggcggatggtaaccgatttaagggccattaatgctgtaattaaacctatgggggccgtccaacccggcatgcctgcccctgctttaatacctaaaaattggcctctcatagttattgatcttaaagattgtttttttcatattgctttacataaatcggattgtgaaaaatttgcttttactgtaccatctatcaataatcaggagcctgcagctcgttatcaatggaaagtacttcctcagggaatgctaaatagccctacaatctgccagctttatgttggacaagtgctttcaccagttcgagcccaatttccccaggcctatattcttcattatattgatgatattttaattgctgcccccactgataaagaattaattgactgttatcaaattttgagccgccgtgttacagaggctggattacacatcgctcaggataaaattcaacagaccactcctgttcaatatttaggaatggtggtcgataaacaacgtattcaacctcaaaaagttcaaattaggagagattctttgaaaactttaaatgacttccaaaaacttttgggtaacattaattatttaagacctactttaggcattccgacctatgcgctgtctaacttgttttctacgctgcggggagattccgatctccgcagtcccaggactttgacccctgaggcttcactagaactggaattcgtagaggaaagaatccagaccgcccagttatctagagtacagccgtttcagccttttcagcttctggttttcgcttcattacactcccctactggactaatagttcaacataatgatttagtggagtggtgttttcttcctcattctgtgtcaaaaactttgtctgtttatctggaccaaatggccatcttaattggacaggctcggtgtagaatacttaaaatttccggatttgatccgaatttaattgtagttcctttaaatcggctcgaagttcaagccgcctttcaacattccgtactgtggcaaattcacttggctgattttattggcgttattgacaatcattatccaaaaaacaaattgtttgattttataaaaatgacntcttgggtggtccctcgattaaccaaagatcagcccattcctgaggccgttacagtgttcactgatggctccagtaatggcaatgctggttatgtaggtcctacagacaagcttatttctaccccttatacctctgctcaaaaggcggagttaattgctgtgattactgccttacaggatttccccaaacctttaaatattgtctctgattctgcttatgttgtacatgccactaaaaatatagaaactgctactatcaaacatattgataattctgaattggcttctttattttcaaggttacaacaggcggttcgccaacgtagacaccctttctatattacacatattagatctcataccactttaccaggacccatgtctgccggtaaccataaagtcgactgtttggtctcttttgcaacccaagaagctcaggagttccataatctcactcatgtcaatgccgctggattaaaagataaatttgctctcacctggaaacaggctaagcttattgttcacagctgccctcagtgccaggtcttcgtacttccaaatcaggaacctggcgttaatcccagaggcctaactcctaatgntttatggcaaatggatgtgactcatgttagctcctttggcagactntcatatgtgcatgtttctgtagataccttctcaggttttatctgggctacttgccaaacaggggaaggcacggcccatgttaaaaaacatctgtattcttgctttgcagttatggggcttccatatcaaataaagacagacaacgcccctggatatgttagtaaggcttttgatttatttatgcaacagtggggaatttcccatattaccggaatcccttacaatcctcagggacaggctgtggtggaacgggccaatcgcactttaaaaacccaattgaaacnncgagtctgaacaacaaaacataatttaactactccccactcccaattacatttggcattgtttactttaaactttctaaatgttcctaaagacaatactctgactgcagccgaacgccattatacaggcaaaaaattctccctaaacgaaggcaagccagtgttatggaaaaactcccaaaccaatacctgggaacctggaacaattataacgtggggaagaggatatgcttgtgtttcaccaggagatcatcaatcccctgtctgggtgcccactaggagactcaagcttcgtgtgaatactgacaacgaaaaccacagggaaaagacgtccgcgtcagagaccgccctcagacgtggtgagatctgtgccgactcctcagaagctggcacgccaaatcanaatgggtctgattcaatcctccctgatggcaacggagacccatctaactaatcccacttctcctgattacctttctttttctccttacaaacctaaaaatctcaccatttctattagcctgaaaataacatccctctgttcttctcttcctccttcagcactgaatctcgcttacaataggttttatttaatgattctcctccttatactttctgtctcaccagtttcctctcacactgatttacctgctacacaaaattattcttattgggcttatgtgccttttcctccacttattcgacctctcacctggatggatgctcctgcggaaatctacactaacgatagtgtgtggatgcctggagctacagatgaccgttgccccgctcaaccaggagaagaaggcactgcatttaatgttaccatgggttataaatacccccctctgtgcctcggacatgcacctggttgtatccatctagaaactcaagtctgggctgcttatcttccggagagatcagctacagaggaaccgggacatttggtctccggcctctccctttctcctttaaaacaaatgaaagggggagtaatgggagataccccatactttcaatataaacctgcaggaaaaccatgccctaaaaattttgagggcccatctaaaactttaatttgggaagattgtgttaactcacatgcagtaatattaaaaaatgactcatatggtttagtaatagactgggcaccaaagggctatttaaaaaacaattgctcctctggcggaagggaatgcctggaggctacttattttatttcttatcgggagaacgagaatcatcattctactttgcataggaggttcagctcattctttcccttaaaatgggaagataaaggcattaccccccgccncccgaggcctcgtatgatactccccattctgagcccagaacacccagaactttggaaattggctattgccatgtctggactgcgagtatgggaaggggaaactnttctgtctgttgtccccactaccgcccctcgcatccgtgattctgaaccccatgataaatcccctttgaacccttttcctctttttgatgccgatcctcctttatgggactccaattggcattatgataattcttctcgacccaggtatgcccctctacctcttcggcatccccgggcacctcggattgcttctttacggcggagaacatcgggcgttgccactaccgcccctctccctcagtatcaacgtagatccagacattctgctttgcttacctccaacctgactgttcccatacagagttgtgttaagcctccttacatgctgttagtgggaaatatcaaaatttggacgaacaatcaaactgtccaatgcattaattgtcatttatacacttgtattaactcccgttttgactccaggaaaagtgtaatgttggttcgagctcgagaaggaatctggattccggtaactttgcccagaccttgggaatcctccccctcaatacatttaattaatgaagtgttacagcgaattctaaaaagatctaagagatttgttttcactttaatcgctgtgatcatgggcctaattacagtcactgcantggccaccactgccggaatggcgttacaccaatctattcaaacggctcattttgttaatgattggcaagccaattccacccaaatgtggaattctcaacaaggcatcgatcaaaaattggctaatcaaattaatgatttaagacagtctgttatttggcttggagatcgggtagtgagtctcgaacatcgcatgcaaatgcagtgcgattggaatacttcggatttctgtatcaccccgtattcctataacgagactgatcattcatgggaaatggtcaaaggacaccttctgggtagggaagataatttatcattggacataactaaattaaagaaacaaatttttgaagcctctcaagctcacttatccattgtgcctggagctgaggcgttagatcaggtggcagaaaatctttctggactaaaccccacgacttggattaagtctattgggggctccactgtagtaaattttggaattatgtttctctgtttaatcggcttgtttttagtgtgccggaccagtcaaagaatcctgcgtcaaaatcgagagaacgaacaagccttcatcgccatggcacatttatataaaaagaaagggagaga
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 ZNF723 29 15.2 Moderately correlated
2 ZNF382 26 99.0 Weakly correlated
3 ZNF679 15 28.9 Highly correlated
4 ZFP57 9 87.0 Weakly correlated
5 ZNF506 8 28.9 Highly correlated
6 ZNF263 5 180.0 Weakly correlated
7 ZNF2 5 99.0 Weakly correlated
8 ZIM3 5 87.0 Weakly correlated
9 ZNF417 5 28.9 Highly correlated
10 ZNF101 4 43.0 Weakly correlated
11 ZNF793 4 99.0 Weakly correlated
12 ZNF251 4 94.0 Weakly correlated
13 ZKSCAN1 4 160.0 Weakly correlated
14 ZNF682 4 28.9 Highly correlated
15 ZNF701 3 28.9 Highly correlated
16 ZNF547 3 74.0 Weakly correlated
17 ZNF587 3 28.9 Highly correlated
18 ZFP69B 3 99.0 Weakly correlated
19 ZNF92 3 28.9 Highly correlated
20 ZNF534 2 19.6 Moderately correlated
21 ZNF727 2 19.6 Moderately correlated
22 ZNF549 2 87.0 Weakly correlated
23 ZNF75D 2 94.0 Weakly correlated
24 ZNF394 2 99.0 Weakly correlated
25 ZNF140 2 99.0 Weakly correlated
26 ZNF317 2 99.0 Weakly correlated
27 ZNF479 2 6.4 Weakly correlated
28 ZFP37 2 99.0 Weakly correlated
29 ZNF485 2 94.0 Weakly correlated
30 ZNF705B 1 28.9 Highly correlated
31 ZNF175 1 94.0 Weakly correlated
32 ZNF766 1 43.0 Weakly correlated
33 ZNF248 1 99.0 Weakly correlated
34 ZNF273 1 28.9 Highly correlated
35 ZNF490 1 43.0 Weakly correlated
36 ZNF716 1 19.6 Moderately correlated
37 ZNF707 1 74.0 Weakly correlated
38 ZNF554 1 99.0 Weakly correlated
39 ZNF324 1 99.0 Weakly correlated
40 ZNF528 1 43.0 Weakly correlated
41 ZNF425 1 94.0 Weakly correlated
42 ZNF671 1 94.0 Weakly correlated
43 ZNF610 1 28.9 Highly correlated
44 ZNF585A 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 ZNF723 22 15.2 Moderately correlated
2 ZNF679 12 28.9 Highly correlated
3 ZNF506 7 28.9 Highly correlated
4 ZNF263 3 180.0 Weakly correlated
5 ZNF701 3 28.9 Highly correlated
6 ZIM3 2 87.0 Weakly correlated
7 ZNF682 2 28.9 Highly correlated
8 ZNF587 2 28.9 Highly correlated
9 ZNF479 2 6.4 Weakly correlated
10 ZNF417 2 28.9 Highly correlated
11 ZNF75D 1 94.0 Weakly correlated
12 ZNF716 1 19.6 Moderately correlated
13 ZNF528 1 43.0 Weakly correlated
14 ZNF707 1 74.0 Weakly correlated
15 ZNF175 1 94.0 Weakly correlated
16 ZNF273 1 28.9 Highly correlated
17 ZNF485 1 94.0 Weakly correlated
18 ZFP37 1 99.0 Weakly correlated
19 ZNF554 1 99.0 Weakly correlated
20 ZNF585A 1 99.0 Weakly correlated
21 ZNF2 1 99.0 Weakly correlated
22 ZNF793 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 ZNF506 28.9 Highly correlated
2 ZNF679 28.9 Highly correlated
3 ZNF723 15.2 Moderately correlated