ZRdb KZFP & Repeats
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LTR_HERVH

  • Name
    HERVH
  • Repbase
    HERVH
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000183
Description :

The long terminal repeat associated with HERVH is LTR7. The putative envgene, consisting of about 1800 base pairs, has two open reading framesinterrupted by a termination codon. The amino acid sequence of thisregion shows significant homology to those of other retroviral envelopeproteins and contains eight potential glycosylation sites. It isestimated that there are about 100 copies of RTVL-H elements containingthe env gene per haploid human genome. Note that this estimate isdistinct from simply tallying all hits (long and short) from this model.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tttggtgccgtgactcggatcgggggacctcccttgggagatcaatcccctgtcctcctgctctttgctccgtgagaaagatccacctacgacctcaggtcctcagaccgaccagcccaaggaacatctcaccaatttcaaatccggtaagcggcctctttttactctcttctccaacctccctcactatccctcaacctctttctcctttcaatcttggcgccacacttcaatctctcccttctcttaatttcaattcctttcattttctggtagagacaaaggagacacgttttatccgtggacccaaaactccggcgccggtcacggactgggaaggcagccttcccttggtgtttaatcattgcagggacgcctctctgattattcacccacgtttcagaggtgtcagaccacgcagggacgcctgccttggtccttcacccttagcggcaagtcccgcttttctgggggaggggcaagtaccccaaccccttctctccgtgtctctaccccttctccgcttttctggggnaggggcaagnacccctcaaccccttctccttcacccttagcggcaagtcccgcttttctaggggggcaagaacccccaaccccttatttccgcgccccgacctcttatctctgcgccccaatcccttatttccgcgccccgacctcttatctctgcgccccgatcccttatttccgcgccccgacctcttatctctgcgccccaaccccttatttccgtgccccgacccctttcccgcttttctggagggcaagaacccccgaaccccttccctccgtgtctctactctctcttttctctgggcttgcctccttcactatgggcaaccttccaccctccattcctccttctcccttagcctgtgttctcaagaacttaaaacctcttcaactcacacctgacctaaaacctaaacgccttattttcttctgcaatgccgcttgaccccaatacaaactcgacagtagttccaaatagccagaaaacggcactttcaatttttccatcctacaagatctaaataattcttgtcgtaaaatgggcaaacggtctgaggtgcctgacgtccaggcattcttttacacatcggtccctccctagtctctgtncccagtgcaactcgtcccaaatcttccttctttccctcccgcctgtcccctcagtcccaaccccaagcgtcgctgagtctttctaatcttccttttctacagacccatctgacctctcccctcctcgccaggccgagctaggtcccaattcttcctcagcctccgctcctccaccctataatccttttatcacctcccctcctcacacccggtccggcttacagtttcgttccgtgactagccctcccccacctgcccagcaatttactcttaaaaaggtggctggagctaaaggcatagtcaaggttaatgctcctttttctttatccgnnnnntcccaaatcagatagcgtttaggctctttttcatcaaatataaaaancccagcccagttcatggctcgtttggcagcaaccctgagacgctttacagccctagaccctaaaaggtcaaaaggccgtcttattctcaatatacattttattacccaatctgctcccgacattaaataaaactccaaaaattaaattccggccctcaaaccccacaacaggacttaattaacctcgccttcaaggtgtacaataatagaaaaaagttgcaattccttgcctccactgtgagacaaaccccagccacatctccagcacacaagaacttccaaacgcctgaaccgcagcggccaggcgttcctccagaacctcctcccccaggagcttgctacaagtgccggaaatctggccaccgggccaaggaatgcccgcagcccgggattcctcctaagccgcgtcccatctgtgcgggaccccactggaaatcggactgttcaactcacctggcagccactcccagagcccctggaactctggcccaaggctctctgactgactccttcccagatcttctcggcttagcggctgaagactgacgctgcccgatcgcctcggaagccccctggaccatcacggacgcttcgggtaactctcacagtggagggtaagtccgtccccttcttaatcaatacggaggctacccactccacattaccttcttttcaagggcctgtttcccttgcctccataactgttgtgggtattgacggccaggcttctaaacctcttaaaactccccaactctggtgccaacttagacaatactcttttaagcactcctttttagttatccccacctgcccagttcccttattaggccgagacactttaactaaattatctgcttccctgactattcctggactacagccacatctcattgccgcccttctccccaatccaaagcctccttcgcgtcctcttgtatccccccaccttaacccacaagtataagatacctctactccctccttggcgaccgatcatgcaccccttaccatctcattaaaacctaatcacccttaccccgctcaacgccaatatcccatcccacagcacgctttaaaaggattaaagcctgttatcactcgcctgctacagcatggccttttaaagcctataaactctccttacaattcccccattttacctgtcctaaaaccagacaagccttacaggttcaggatctgcgccttatcaaccaaattgttttgcctatccaccccgtggtgccaaacccatatactctcctatcctcaatacctccctccacaacccattattctgttctggatctcaaacatgctttctttactattcctttgcacccttcatcccagcctctcttcgctttcacttggactgaccctgacacccatcaggctcagcaaattacctgggctgtactgccgcaaggcttcacagacagcccccattacttcagtcaagcccttcctcatgatttactttctttccacccctccgcttctcaccttattcaatatattgatgaccttctnctttgtagcccctcctttgaatcttctcaacaagacacnctnctgctccttcancatttattctccaaaggatatccccctccaaagcccaaatttcttcctcatctgttacctatctcggcataattcttcataaaaacacacgtgctctccctgccgatcgtgtccgactgatctctcaaaccccaaccccttctacaaaacaacaactcctttccttcctaggcatggttggatactttcgcctttggatacctggttttgccatcctaacaaaaccattatataaactcacaaaaggaaacctagctgaccccatagatcctaaatcctttccccactcctctttccgttccttgaagacagctttagagactgcccccaccctagctctccctgactcatcccaacccttttcattacacacagccgaagtgcagggctgtgcagtcggaattcttacacaaggaccgggaccgcgccctgtagcctttttgtccaaacaacttgaccttactgttttaggctggccatcatgtctccgtgcggcggctgccgccgccctaatacttttagaggccctcaaaatcacaaactatgctcaactcactctctacagttctcataacttccaaaatctattttcttcctcacacctgacgcatatactttctgctccccggctccttcagctgtactcactctgttgagtctcccacaattaccattgttcctggcccggacttcaatccggcctcccacattattcctgataccacacctgacccccatgactgtatctctctgatccacctgacattcaccccatttccccatatttccttctttcctgttcctcaccctgatcacacttggtttattgatggcagttccaccaggcctaatcgccacacaccagcaaaggcaggctatgctatgaactcgttgccttaactcgagccctcactcttgcaaagggactacgcgtcaatatttatactgactctaaatatgccttccatatcctgcaccaccatgctgttatatgggctgaaagaggtttcctcactacgcaagggtcctccatcattaatgcctctttaaaaaaactcttctcaaggccgctttacttccaaaggaagctggagtcattcactgcaagggccatcaaaaggcatcagatcccatcgctcagggcaacgcttatgctgataaggtagctaaagaagcagctagcgttccaacttctgtccctcacggccagtttttctccttctcatcggtcactcccacctactcccccgctgaaacttccacctatcaatctcttcccacacaaggcaaatggttcttggaccaaggaaaatatctccttccagcctcacaggcccattctattctgtcgtcatttcataacctcttccatgtaggttacaagccgctagcccgcctcttagaacctctcatttcctttccatcgtggaaatctatcctcaaggaaatcacttctcagtgttccatctgctattctactactcctcagggattgttcaggccccctcccttccctacacatcaagctcggggatttgcccccgcccaggactggcaaattgactttactcacatgccccgagtcaggaaactaaaatacctcttggtctgggtagacactttcactggatgggtagaggcctttcccacagggtctgagaaggccaccgcggtcatttcttcccttctgtcagacataattcctcggtttggccttcccacctctatacagtccgataacggaccggcctttattagtcaaatcagccaagcagtttctcaggctcttggtattcagtgaaacctttatatcccttacggtcctcagtcttcaggaaaggtagaacggactaatggtcttttaaaaacacacctcaccaagctcagccaccaacttaaaaaggactggacaatacttttaccactttcccttctcagaattcgggcctgtcctcggaatgctacagggtacagcccatttgagctcctgtatggacgctcctttttattaggccccagtctcattccagacaccagacctctaggcgactatcttccagtcctccagcaggctagacaggaaattcgccaggctgctaatcttctcttgcctactccagatccccagccatatgaagacaccctagctggacgatcagttcttgttaagaatctgacccctcaaactctacaacctcgatggaccggaccctacttagtcatctatagtaccccgactgccgtccgcctgcaggatcctccccactgggttcaccgttccagaataaagctgtgtccgtcggacagccagcctaatccctcctcttcctcctggaagtcgcaagtactctcccctacttcccttaaactcactcgcatttctgaagaacagtaataacccttatgagcctaatacatcccttcattctattaggtctgttcgtccttaccctactttttgcaacagggctttacgnagtcacccccaccacttggaccgagccccaaaaaacttgtcatccctactatcttctgtctagtcatactcctattcnccgttctcaactactcataaatgccctactcttgtttacactgccggtttacactgtttctccaagccatcacagctgatatctcctggtgctatccccaaaccgccactcttaactccctcttagagtggatagatgatctttgctggcagggcaccctccaatactttcaccctgatgaagttctattctttacttttatactcactcttattctcattcccattcttatgccaccctctacctctccccagctatctccaccacactatcaaccttacccattctctcctagccgtttctaatccctccttagcgaacaactgctggctttgcatttccctttcttccagcgcctacacagctgtccccgccttacanacagactgggcaacatctcctgtctccctacacctccgaacttcctttaacagccctcacctttaccctcctgaagaactcatttactttctagacaggtccagcaagacctccccagacatttcacatcagcaagctgccgccctcctccgcacttacttaaaaaacctttctccttatatcaactctactccccccatatttggacctctcacaacacaaactactattcctgtggccgctcctttatgtatctctcggcaaagacccactggaattcccctaggtaacctttcaccttctcgatgttcctttactcttcatctccgaagcccaactacacacatcactgaaacaattggagccttccagctccatattacagacaagccctctatcaatactggcaaacttaaaaacattagcagtaattattgcttaggaagacacttaccctgtatttcactccatccttggctaccttccccttgctcgtcagactctcctcccaggccctcttcttgtttacttatacccagccccgaaaataacagtgaaaggttgctcgtagatactcaacgttttctcatacaccatgaaaatcgaacctccccctctacgcagttaccccatcagtccccattacaacctctgacggctgccgccctagctggatccctaggagtctgggtacaagacacccctttcagcactccttctcatctttttactttgcatctccagttttgcctcgcacaaggtctcttcttcctctgtggatcctctacctacatgtgtctacctgctaattggacaggcacatgcacactagttttccttacccccaaaattcaatttgcaaatgggaccgaagagctccctgttcccctcatgacaccgacacgacaaaaaagagttattccactaattcccttgctngtcggtttaggactttctgcctccactattgctctcggtactggaatagcaggcatttcaacctctgtcacgaccttccgtagcctctctaatgacttctctgctagcatcacagacatatcacaaactttatcagtcctccaggcccaagttgactctttagctgcagttgtcctccaaaaccgccgaggcctcgacttactcactgctgaaaaaggaggactctgtatattcttaaatgaagagtgttgtttttacctaaatcaatctggcctggtgtatgacaacataaaaaaactcaaggatagagcccaaaaactcgccaaccaagcaagtaattacgctgaacccccttgggcactctctaattggatgtcctgggtcctcccaattcttagtcctttaatacccgtttttctccttctcttattcggaccttgtgtcttccgtttagtttctcaattcatncaaaaccgtatccaggccatcaccaatcattctatacgacaaatgctccttctaacaaccccacaatatcaccccttaccacaaaatcttccttcagcttaatctctcccactctaggttcccacgccgcccctaatcccgctcgaagcagccctgagaaacatcgcccattatctctcnncataccaccccccaaaaattttcgccgccccaacacttcancactattttatttttcttattaatataagaagacaggaa
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 ZNF534 843 19.6 Moderately correlated
2 ZNF75D 335 94.0 Weakly correlated
3 ZNF705B 257 28.9 Highly correlated
4 ZNF705D 191 28.9 Highly correlated
5 ZNF735 163 28.9 Highly correlated
6 ZFP57 159 87.0 Weakly correlated
7 ZNF257 145 0.0 Weakly correlated
8 ZNF90 132 8.6 Weakly correlated
9 ZNF679 83 28.9 Highly correlated
10 ZNF382 63 99.0 Weakly correlated
11 ZNF680 60 28.9 Highly correlated
12 ZNF766 57 43.0 Weakly correlated
13 ZNF479 43 6.4 Weakly correlated
14 ZNF282 40 319.0 Weakly correlated
15 ZNF18 37 160.0 Weakly correlated
16 ZNF723 37 15.2 Moderately correlated
17 ZNF700 35 28.9 Highly correlated
18 ZNF793 28 99.0 Weakly correlated
19 ZNF429 26 28.9 Highly correlated
20 ZNF845 26 28.9 Highly correlated
21 ZNF197 21 99.0 Weakly correlated
22 ZNF263 21 180.0 Weakly correlated
23 ZNF101 20 43.0 Weakly correlated
24 ZNF320 20 28.9 Highly correlated
25 ZNF589 20 28.9 Highly correlated
26 ZNF2 19 99.0 Weakly correlated
27 ZNF485 19 94.0 Weakly correlated
28 ZNF175 19 94.0 Weakly correlated
29 ZNF701 18 28.9 Highly correlated
30 ZNF610 16 28.9 Highly correlated
31 ZNF506 16 28.9 Highly correlated
32 ZNF251 15 94.0 Weakly correlated
33 ZNF28 14 28.9 Highly correlated
34 ZNF324 14 99.0 Weakly correlated
35 ZKSCAN1 14 160.0 Weakly correlated
36 ZNF486 14 8.6 Weakly correlated
37 ZFP37 13 99.0 Weakly correlated
38 ZKSCAN8 13 160.0 Weakly correlated
39 ZNF141 13 43.0 Weakly correlated
40 ZNF394 11 99.0 Weakly correlated
41 ZNF202 11 160.0 Weakly correlated
42 ZNF554 10 99.0 Weakly correlated
43 ZNF584 10 99.0 Weakly correlated
44 ZNF585B 10 99.0 Weakly correlated
45 ZFP69B 8 99.0 Weakly correlated
46 ZNF519 8 19.6 Moderately correlated
47 ZNF675 8 8.6 Weakly correlated
48 ZNF490 7 43.0 Weakly correlated
49 ZKSCAN5 7 160.0 Weakly correlated
50 ZNF480 6 43.0 Weakly correlated
51 ZNF418 6 43.0 Weakly correlated
52 ZNF792 6 94.0 Weakly correlated
53 ZNF716 5 19.6 Moderately correlated
54 ZNF558 5 99.0 Weakly correlated
55 ZNF317 4 99.0 Weakly correlated
56 ZNF133 3 99.0 Weakly correlated
57 ZNF780A 3 43.0 Weakly correlated
58 ZNF677 3 99.0 Weakly correlated
59 ZNF140 3 99.0 Weakly correlated
60 ZNF528 3 43.0 Weakly correlated
61 ZNF8 3 99.0 Weakly correlated
62 ZNF468 3 28.9 Highly correlated
63 ZNF334 2 99.0 Weakly correlated
64 ZNF778 2 74.0 Weakly correlated
65 ZNF605 2 99.0 Weakly correlated
66 ZNF549 2 87.0 Weakly correlated
67 ZNF777 2 319.0 Weakly correlated
68 ZNF274 2 99.0 Weakly correlated
69 ZNF808 2 19.6 Moderately correlated
70 ZNF707 2 74.0 Weakly correlated
71 ZNF789 1 99.0 Weakly correlated
72 ZNF799 1 43.0 Weakly correlated
73 ZNF765 1 8.6 Weakly correlated
74 ZFP14 1 99.0 Weakly correlated
75 ZNF91 1 6.0 Weakly correlated
76 ZNF747 1 43.0 Weakly correlated
77 ZNF136 1 74.0 Weakly correlated
78 ZNF264 1 99.0 Weakly correlated
79 ZNF682 1 28.9 Highly correlated
80 ZNF287 1 99.0 Weakly correlated
81 ZNF641 1 99.0 Weakly correlated
82 ZNF626 1 0.0 Weakly correlated
83 ZNF611 1 19.6 Moderately correlated
84 ZNF587 1 28.9 Highly correlated
85 ZNF547 1 74.0 Weakly correlated
86 ZNF416 1 43.0 Weakly correlated
87 ZNF417 1 28.9 Highly correlated
88 ZNF41 1 99.0 Weakly correlated
89 ZNF483 1 99.0 Weakly correlated
90 ZNF441 1 43.0 Weakly correlated
91 ZNF471 1 94.0 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 ZNF534 795 19.6 Moderately correlated
2 ZNF75D 182 94.0 Weakly correlated
3 ZNF735 141 28.9 Highly correlated
4 ZNF90 132 8.6 Weakly correlated
5 ZNF257 126 0.0 Weakly correlated
6 ZFP57 55 87.0 Weakly correlated
7 ZNF723 34 15.2 Moderately correlated
8 ZNF680 28 28.9 Highly correlated
9 ZNF479 21 6.4 Weakly correlated
10 ZNF282 16 319.0 Weakly correlated
11 ZNF263 15 180.0 Weakly correlated
12 ZNF485 15 94.0 Weakly correlated
13 ZNF793 14 99.0 Weakly correlated
14 ZNF197 11 99.0 Weakly correlated
15 ZNF506 9 28.9 Highly correlated
16 ZNF175 8 94.0 Weakly correlated
17 ZNF589 8 28.9 Highly correlated
18 ZNF766 7 43.0 Weakly correlated
19 ZNF701 7 28.9 Highly correlated
20 ZNF679 6 28.9 Highly correlated
21 ZKSCAN5 6 160.0 Weakly correlated
22 ZNF18 5 160.0 Weakly correlated
23 ZNF28 5 28.9 Highly correlated
24 ZNF320 4 28.9 Highly correlated
25 ZNF584 4 99.0 Weakly correlated
26 ZNF141 3 43.0 Weakly correlated
27 ZNF716 3 19.6 Moderately correlated
28 ZNF549 2 87.0 Weakly correlated
29 ZNF792 2 94.0 Weakly correlated
30 ZNF468 2 28.9 Highly correlated
31 ZNF528 2 43.0 Weakly correlated
32 ZNF264 1 99.0 Weakly correlated
33 ZNF382 1 99.0 Weakly correlated
34 ZNF705D 1 28.9 Highly correlated
35 ZNF789 1 99.0 Weakly correlated
36 ZNF610 1 28.9 Highly correlated
37 ZNF140 1 99.0 Weakly correlated
38 ZNF675 1 8.6 Weakly correlated
39 ZNF41 1 99.0 Weakly correlated
40 ZNF317 1 99.0 Weakly correlated
41 ZNF480 1 43.0 Weakly correlated
42 ZNF251 1 94.0 Weakly correlated
43 ZKSCAN1 1 160.0 Weakly correlated
44 ZFP69B 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 ZFP57 87.0 Weakly correlated
2 ZNF175 94.0 Weakly correlated
3 ZNF197 99.0 Weakly correlated
4 ZNF257 0.0 Weakly correlated
5 ZNF263 180.0 Weakly correlated
6 ZNF282 319.0 Weakly correlated
7 ZNF479 6.4 Weakly correlated
8 ZNF485 94.0 Weakly correlated
9 ZNF506 28.9 Highly correlated
10 ZNF534 19.6 Moderately correlated
11 ZNF589 28.9 Highly correlated
12 ZNF680 28.9 Highly correlated
13 ZNF701 28.9 Highly correlated
14 ZNF723 15.2 Moderately correlated
15 ZNF75D 94.0 Weakly correlated
16 ZNF766 43.0 Weakly correlated
17 ZNF793 99.0 Weakly correlated
18 ZNF90 8.6 Weakly correlated