ZRdb KZFP & Repeats
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LTR_HERV16

  • Name
    HERV16
  • Repbase
    HERV16
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000162
Description :

LTRs of HERV16 are listed in Repbase as LTR16 sequences. HERV16 isrelated to HERVL and is relatively old (>20% divergence from consensus).Bases 300 to 1300 encoded a GAG protein closely similar to the murine"retrovirus restriction polypeptide" (PIDs e24674 and e242676).
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
gttggtaccaggagtggtccgagaaagcagacgntnctaagatgggattttggagctggatcacccgccgnccggctggcaatgaggaccccatcactggtggtaggtggagcacggatagcccctggcacgaggtagcggtgcaattgttaaaactttcaccggtggtgaactgggatggnataccggtggaaagagaatgcactggcnggtgcaatgtntcaggcgtttgagaaatatgggangaattaantacatgnaaggacaatggaattggatggctgttgctaagcncgactgacgctctggaaaaagacaatgaaaggctgagagcgattaatcgncaattnaaagctaagtgtgaaagccagagggcctccttggcagcatataaagagactctcatctcctgcagccggagggcagagaaagctgaggatcaggcccaggacttaatcagagtagcagagctccagagaaggttgaattctcaaccnaggcaggtctgctatgccaaggtcagggccctggttgggaaagaatgggaccctganacntgggatggggacatctgggtcgatgcncctgaaaatcttgaatccccagattcccctgaaccctctgggcctgcagaagtggcccactcctccctgttaagggctagcactcnctccttgcttcgcgngaagacgatgcagaggcctctnccttngcaagacaacatgcgcccccctcaggatctgcccccacctcccctcctggccaccagaccaataactagggttaagtcacagcataacccggccggggaagtgctgggcctgntaagggaggaaagggactataccccaaaggagctgcaggacncgnctagccagcatgtaccggcaggaccgggagagtacgcatgggactggattctgagggtgctggatcaagggggncggaacataaagttggataagggagagtttatcgatntgggagcactctcccgngatacaggatttaacaccctggcaaggaccccgggagatggtgcnaacacgctgctaggatggctcctggaagcntggagaaagcgatggcccacactaagtgaagtagaaatgccagaactgccgtggcagacggtggaagaagggatcaaaaggctcagagaagtgggcatgctagagtggatatactatgtaaggccggaaaacccaccagatgactatgttccgcgggagggcccagaggacacnccatttaccaaagcnataaggaatgcgctggtgagaggggcaccagcatcactgagaagctcagtggtggctntcctctgcaggccagggctgacggtaggagangccgttacagaactgggctcnctgatagcaatggggatgataggaccccgaaataatagaggccaggtggcggcgcttaaccgtcagaagcaaggtgggcgcaattatcgtaatgnacggcaaggtcggagtggcagccgggggggcctgacccgcagagagctatggagatggttaatagaacacggcgtccctaggggcaagatagatgggcagccaacaggaagncatggacagttaatagaacatggcgtcctaggggcaagatagatgggcagccaacaagggtgtattgctcaactnaaacaancaaaagaaatcaaggatggatgancaggaggctgagggcagtcgccccaataaaaagtcacgatcccttgcccagtttccggacctgagccagttttcagacccggaacccattgactgaaggagaggccgggtccccaggaggaaggaccctgcaacaccacggcaagtgtacacggtaatgattcccccagtccttccccaaagggacctacggccatttactctgggtaaccgtacactggggaaaggggaatacccagacatttcgaggactgttggacacagggtccgagttgacattgatacccggagacccgaagcgtcatcatggccctcccgttagagtgggggcatatgggggccaggtaataaatggagtcctggcccaggtccggctcacagtgggtccactgggtccacggacccacagtggtcatttccccggtccccgaatgtataattggaatggacatacttggtagttggcanaacccccacattggttccttggcctgtggggtaagagctatcatagtggggaaggccaagtggaagcctctgaaactgccctcaccttctccggncaagatagtaaatcaaaaacaatatcgcatcctcggggtggagaatggcagagattagtgccacccttaaagacctaaaggatgcaggagntgtggtccccatcatatctccatttaattcaccagtncnggcccctgcaaaaaccagacggatcctggangacgacagtggactaccgcaaactcaaccaagtagtancccaattgcagctgctgtgccagatgtggtatctttgctagagcagattaacacggcctcaggtacgtggtatgcggccattgatctggcgaatgcgttcttttccatccctatcagaaaggaggatcagaagcagttcgcattcacntggaacggacaacagtatacatttacagtcttgccccagggctntgttaactctcctgccctctgtcataatatagtccgaagggacctggaccatctggacattccgcagaacatcacattggtccactatatcgatgacatcatgctaatcggaccggaatgagcaagaagtggcaagtacgttggaggccttggtaagacacatgcgctccagagggtgggagataaaccctacgaagattcaggggcctgccacatcagtgaagtttttaggggtccagtggtctggggcatgccgggacatccccccaaagtaaaggacaaattattgcatcttgcacctcccaccacnaagaaggaagcacaacgcctggtaggcctcttcgggttctggaggcagcatattccacacttgggaatactgctccgacccatntaccgggtgacgcgaaaggctgccagctttgagtggggcccaagcaggaaagggctctgtagctnaccgcatatcgtgtncgaancgcananncggncctccaagtcataaagtngggcgggcccagcagcagtccatcataaggtggaaatagnatatccgagattaagcccgagnaggaccagagggcgcaggtnagntncatgagcaggtagcccagacccccatgncacccaccacngttgcaccagcgcctctccttcggctcgcacctatggccatatngaggnntgtggtcccgtatgaccagctgaaggaaagctcgagcttggtttacaggatcagctcggtatgtgggcgcaagccaaaatangtggtggctgcactacagccccattcaggggtggccctgaaaggcagcagggagtgaaaatatcttcccagtgggcagagctgcgagcagtgcacctggtcatccactttncgtggaaggagaagtggcccgagatggtaatatatacggattnctggacagtggccaatggcctggtcggctggtcaggagcttggaaggaaaagattagaganagggaagtctggggtagaggcatgtggatagacatatnggaagtggcacgaaatacgaagatttttgtatcgntnntatgttaacgctcacangaaagcatcnaccatgaaagagncactgaacaaccaagtagacaaagtgacttcgaccactgacgttagccagccttcgtcccggcctcctcaganctggtncaacggacatctcaanaaagtagccatggtggcagagatggaggctacgcatgggcccaacagcatggactcctatncaccaagncgatctagctgctgccccgtntgaatgtccaacctgcagcaacagagaccaatgctctacctcnaatacggcactatttatggagaccacttagcggcgaattgactatattggacgccttccatcctggaanggncagngattcattctcacaggaatanatacntattccgggtatgggtttgcctttcctgcctgcanagcctcatcnagcatctgagggncttaggagtgcctgatccacaggcatggaatcccacacaacatagcatctgancagggcgctcacttcacagcaaagaagnggcacaagtgggtccanaataacgggatccacttatcntatcacgtaccgcaccatccagaagnagctgacctnatagaacgcttctgaaggcacagntgaagcaccagtngaggcgaactctgaaagaattgggtgccatcctccaggatgcagtatatacattgaatcanaggcctatncgtngggcnttgnntctaatngggagaatgggattaggaataagaggtgaaagcaggagtgtgcctactccccatcgtagtggcccacaaggatcacagcagtggtttgaacacggattggactactgatatccaggaatcgccgcacaagaaggngaatccacatttggcaggagtaattgaccntgatcancaggaggggtagggctgctntcgcanaatgaggaagaaaggaatatgtntggaaccaggtgatccncttgggtgcctcctggtactcccttgccccatttaactgtaaatggacaatnccaccgaaaagagctcggaccnctccggaatgaaggtttggntcacatcgccnggtaagccaccaagacctgtcgaagtgatagctgngtgaggganatctagaatggatagtagaagagggagacgatgagtaccagttncggccccgagaccaactgcagcaannggggctgtagttcgtcccactaacctccctcttctaagtttcgcttcagaaagagaagcttaaaggaataatggaggaactgctccnngaacctgngtggagaagtagatccgtcgagtacaaaggtggac
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 ZNF382 28 99.0 Highly correlated
2 ZNF766 22 43.0 Weakly correlated
3 ZIM3 22 87.0 Moderately correlated
4 ZNF263 19 180.0 Weakly correlated
5 ZNF679 16 28.9 Weakly correlated
6 ZNF680 12 28.9 Weakly correlated
7 ZNF479 11 6.4 Weakly correlated
8 ZNF723 10 15.2 Weakly correlated
9 ZNF317 9 99.0 Highly correlated
10 ZNF589 8 28.9 Weakly correlated
11 ZNF28 8 28.9 Weakly correlated
12 ZNF394 8 99.0 Highly correlated
13 ZKSCAN1 8 160.0 Weakly correlated
14 ZNF707 8 74.0 Weakly correlated
15 ZNF534 7 19.6 Weakly correlated
16 ZNF320 7 28.9 Weakly correlated
17 ZNF793 7 99.0 Highly correlated
18 ZNF2 6 99.0 Highly correlated
19 ZNF485 6 94.0 Moderately correlated
20 ZNF257 6 0.0 Weakly correlated
21 ZNF18 6 160.0 Weakly correlated
22 ZNF175 6 94.0 Moderately correlated
23 ZNF197 5 99.0 Highly correlated
24 ZNF75D 5 94.0 Moderately correlated
25 ZNF584 5 99.0 Highly correlated
26 ZKSCAN8 5 160.0 Weakly correlated
27 ZNF490 4 43.0 Weakly correlated
28 ZNF486 4 8.6 Weakly correlated
29 ZNF157 4 99.0 Highly correlated
30 ZFP37 4 99.0 Highly correlated
31 ZNF133 4 99.0 Highly correlated
32 ZFP69B 4 99.0 Highly correlated
33 ZNF705B 3 28.9 Weakly correlated
34 ZNF705D 3 28.9 Weakly correlated
35 ZFP57 3 87.0 Moderately correlated
36 ZNF701 3 28.9 Weakly correlated
37 ZNF141 3 43.0 Weakly correlated
38 ZNF554 3 99.0 Highly correlated
39 ZNF786 3 99.0 Highly correlated
40 ZNF597 2 94.0 Moderately correlated
41 ZNF573 2 94.0 Moderately correlated
42 ZNF682 2 28.9 Weakly correlated
43 ZNF563 2 28.9 Weakly correlated
44 ZNF585B 2 99.0 Highly correlated
45 ZNF506 2 28.9 Weakly correlated
46 ZNF425 2 94.0 Moderately correlated
47 ZNF324 2 99.0 Highly correlated
48 ZNF274 2 99.0 Highly correlated
49 ZNF251 2 94.0 Moderately correlated
50 ZNF101 2 43.0 Weakly correlated
51 ZNF736 1 43.0 Weakly correlated
52 ZNF75A 1 94.0 Moderately correlated
53 ZNF799 1 43.0 Weakly correlated
54 ZNF675 1 8.6 Weakly correlated
55 ZNF823 1 43.0 Weakly correlated
56 ZNF8 1 99.0 Highly correlated
57 ZNF91 1 6.0 Weakly correlated
58 ZNF480 1 43.0 Weakly correlated
59 ZNF429 1 28.9 Weakly correlated
60 ZFP28 1 99.0 Highly correlated
61 ZIK1 1 87.0 Moderately correlated
62 ZNF10 1 99.0 Highly correlated
63 ZNF140 1 99.0 Highly correlated
64 ZNF169 1 94.0 Moderately correlated
65 ZNF182 1 99.0 Highly correlated
66 ZNF224 1 69.0 Weakly correlated
67 ZNF273 1 28.9 Weakly correlated
68 ZNF334 1 99.0 Highly correlated
69 ZNF347 1 43.0 Weakly correlated
70 ZNF585A 1 99.0 Highly correlated
71 ZNF44 1 43.0 Weakly correlated
72 PRDM9 1 0.0 Weakly correlated
73 ZNF510 1 99.0 Highly correlated
74 ZNF528 1 43.0 Weakly correlated
75 ZNF547 1 74.0 Weakly correlated
76 ZNF549 1 87.0 Moderately correlated
77 ZNF558 1 99.0 Highly correlated
78 ZNF567 1 99.0 Highly correlated
79 ZNF57 1 28.9 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 ZNF263 9 180.0 Weakly correlated
2 ZIM3 8 87.0 Moderately correlated
3 ZNF723 8 15.2 Weakly correlated
4 ZNF479 7 6.4 Weakly correlated
5 ZNF485 6 94.0 Moderately correlated
6 ZNF680 5 28.9 Weakly correlated
7 ZNF257 4 0.0 Weakly correlated
8 ZNF534 4 19.6 Weakly correlated
9 ZNF707 3 74.0 Weakly correlated
10 ZNF320 3 28.9 Weakly correlated
11 ZNF766 3 43.0 Weakly correlated
12 ZNF793 3 99.0 Highly correlated
13 ZNF382 2 99.0 Highly correlated
14 ZNF506 2 28.9 Weakly correlated
15 ZNF317 2 99.0 Highly correlated
16 ZNF2 2 99.0 Highly correlated
17 ZNF75D 2 94.0 Moderately correlated
18 ZNF157 2 99.0 Highly correlated
19 ZNF18 2 160.0 Weakly correlated
20 ZNF133 2 99.0 Highly correlated
21 ZNF679 1 28.9 Weakly correlated
22 ZNF573 1 94.0 Moderately correlated
23 ZNF175 1 94.0 Moderately correlated
24 ZNF589 1 28.9 Weakly correlated
25 ZNF554 1 99.0 Highly correlated
26 ZNF490 1 43.0 Weakly correlated
27 ZNF567 1 99.0 Highly correlated
28 ZNF44 1 43.0 Weakly correlated
29 ZNF584 1 99.0 Highly correlated
30 PRDM9 1 0.0 Weakly correlated
31 ZNF597 1 94.0 Moderately correlated
32 ZNF585B 1 99.0 Highly correlated
33 ZNF736 1 43.0 Weakly correlated
34 ZNF675 1 8.6 Weakly correlated
35 ZNF28 1 28.9 Weakly correlated
36 ZNF251 1 94.0 Moderately correlated
37 ZNF141 1 43.0 Weakly correlated
38 ZNF10 1 99.0 Highly correlated
39 ZIK1 1 87.0 Moderately correlated
40 ZFP69B 1 99.0 Highly 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 ZIM3 87.0 Moderately correlated
2 ZNF263 180.0 Weakly correlated
3 ZNF479 6.4 Weakly correlated
4 ZNF723 15.2 Weakly correlated