ZRdb KZFP & Repeats
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Retroposon_SVA_E

  • Name
    SVA_E
  • Repbase
    SVA_E
  • Type
    Retroposon
  • Emergence
    0.0 Mya
  • Dfam Id
    DF0001071
Description :

SVA retroelements are hominid-specific chimeras, some of which are stillactive in the human population. These SINEs are a unique combination offeatures. The 5' end begins with hexamer repeats, followed by two Alusin reverse orientation. The center is comprised of a number of VNTRregions (Variable Number of Tandem Repeats) that may span a few hundredbasepairs, up to 2Kbp. The 3' end is formed by a portion of a HERVK LTR(the SINE-R feature). SVA_E is still highly polymorphic in the humanpopulation .
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
ctctccctctccctctccctctccctctccctctccctctccctctcccctccctccacggtctccctctgatgccgagccaaagctggacggtactgctgccatctcggctcactgcaacctccctgcctgattctcctgcctcagcctgccgagtgcctgcgattgcaggcgcgcgccgccacgcctgactggttttcgtttttttttggtggagacggggtctcgctgtgttgnccgggctggtctccagctcctggccgcgagtgatccgccngcctcggcctcccgaggtgccgggattgcagacggagtctcgttcactcagtgctcaatggtgcccaggctggagtgcagtggcgtgatctcggctcgctacaaccacctcccagccgcctgccttggcctcccaaagagccggattgcagcctctgcccggccgccgccccgtccgggaggtgaggagcgcctctgcccggccgcccatcgtccgggangtgaggagcccctctgcccggccgccccgtccgggaggtgaggagcgcctctgcccggccgccgccccgtctgggaagtgaggagcgcctctgcccggccgcccnncgtccgggangtggggagcgcctccgcccngccgccccgtccgggaggtgaggagcgcctccgcccggccagccgccccgtccgggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggtgaggggcgcctctgcccggccgcccctactgggaagtgaggagcccctctgcccggccaccgccccgtccgggaggtgtgcccagcggctcattggggatgggccatgatgacaatggcggttttgtggaatagaaaggcgggaagggtggggaaaaaattgagaaatcggatggttgccgggtctgtgtggatagaagtagacatgggagacttttcattttgttctgtactaagaaaaattcttctgccttgggatcctgttgatctgtgaccttatccccaaccctgtgctctctgaaacatgtgctgtgtccactcagggttaaatggattaagggcggtgcaagatgtgctttgttaaacagatgcttgaaggcagcatgctcgttaagagtcatcaccactccctaatcttaagtacccagggacacaaacactgcggaaggccgcagggtcctctgcctaggaaaaccagagacctttgttcacttgtttatctgctgaccttccctccactattgtcctatgaccctgccaaatccccctctgcgagaaacacccaagaatgatcaataaaaaaaaaaaaaaaaaaaa
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 ZNF705B 250 28.9 Weakly correlated
2 ZNF705D 183 28.9 Weakly correlated
3 ZNF91 102 6.0 Weakly correlated
4 ZNF461 59 99.0 Weakly correlated
5 ZNF560 53 43.0 Weakly correlated
6 ZNF611 52 19.6 Weakly correlated
7 ZNF382 39 99.0 Weakly correlated
8 ZNF394 29 99.0 Weakly correlated
9 ZNF763 22 15.2 Weakly correlated
10 ZNF705E 15 0.0 Highly correlated
11 ZNF263 14 180.0 Weakly correlated
12 ZFP57 12 87.0 Weakly correlated
13 ZNF641 12 99.0 Weakly correlated
14 ZFP37 11 99.0 Weakly correlated
15 ZNF253 11 19.6 Weakly correlated
16 ZNF2 11 99.0 Weakly correlated
17 ZNF101 10 43.0 Weakly correlated
18 ZNF735 10 28.9 Weakly correlated
19 ZNF878 10 43.0 Weakly correlated
20 ZKSCAN1 9 160.0 Weakly correlated
21 ZNF202 9 160.0 Weakly correlated
22 ZNF282 9 319.0 Weakly correlated
23 ZNF500 9 160.0 Weakly correlated
24 ZNF649 8 28.9 Weakly correlated
25 ZNF680 8 28.9 Weakly correlated
26 ZKSCAN5 7 160.0 Weakly correlated
27 ZNF234 7 99.0 Weakly correlated
28 ZNF534 7 19.6 Weakly correlated
29 ZNF558 7 99.0 Weakly correlated
30 ZNF624 7 99.0 Weakly correlated
31 ZFP69B 6 99.0 Weakly correlated
32 ZNF28 6 28.9 Weakly correlated
33 ZNF324 6 99.0 Weakly correlated
34 ZNF610 6 28.9 Weakly correlated
35 ZNF699 6 99.0 Weakly correlated
36 ZNF14 5 69.0 Weakly correlated
37 ZNF18 5 160.0 Weakly correlated
38 ZNF257 5 0.0 Highly correlated
39 ZNF347 5 43.0 Weakly correlated
40 ZNF723 5 15.2 Weakly correlated
41 ZNF780A 5 43.0 Weakly correlated
42 ZNF140 4 99.0 Weakly correlated
43 ZNF251 4 94.0 Weakly correlated
44 ZNF607 4 43.0 Weakly correlated
45 ZNF726 4 28.9 Weakly correlated
46 ZNF792 4 94.0 Weakly correlated
47 ZNF813 4 28.9 Weakly correlated
48 ZNF468 3 28.9 Weakly correlated
49 ZNF547 3 74.0 Weakly correlated
50 ZNF675 3 8.6 Weakly correlated
51 ZNF679 3 28.9 Weakly correlated
52 ZIM3 2 87.0 Weakly correlated
53 ZNF141 2 43.0 Weakly correlated
54 ZNF197 2 99.0 Weakly correlated
55 ZNF274 2 99.0 Weakly correlated
56 ZNF30 2 94.0 Weakly correlated
57 ZNF317 2 99.0 Weakly correlated
58 ZNF460 2 74.0 Weakly correlated
59 ZNF473 2 43.0 Weakly correlated
60 ZNF479 2 6.4 Weakly correlated
61 ZNF486 2 8.6 Weakly correlated
62 ZNF510 2 99.0 Weakly correlated
63 ZNF519 2 19.6 Weakly correlated
64 ZNF551 2 94.0 Weakly correlated
65 ZNF616 2 43.0 Weakly correlated
66 ZNF682 2 28.9 Weakly correlated
67 ZNF701 2 28.9 Weakly correlated
68 ZNF747 2 43.0 Weakly correlated
69 ZNF75D 2 94.0 Weakly correlated
70 ZNF766 2 43.0 Weakly correlated
71 ZFP28 1 99.0 Weakly correlated
72 ZNF114 1 28.9 Weakly correlated
73 ZNF160 1 74.0 Weakly correlated
74 ZNF169 1 94.0 Weakly correlated
75 ZNF182 1 99.0 Weakly correlated
76 ZNF222 1 43.0 Weakly correlated
77 ZNF230 1 28.9 Weakly correlated
78 ZNF268 1 94.0 Weakly correlated
79 ZNF284 1 43.0 Weakly correlated
80 ZNF286A 1 160.0 Weakly correlated
81 ZNF420 1 94.0 Weakly correlated
82 ZNF436 1 180.0 Weakly correlated
83 ZNF471 1 94.0 Weakly correlated
84 ZNF559 1 74.0 Weakly correlated
85 ZNF563 1 28.9 Weakly correlated
86 ZNF573 1 94.0 Weakly correlated
87 ZNF583 1 99.0 Weakly correlated
88 ZNF585B 1 99.0 Weakly correlated
89 ZNF587B 1 8.6 Weakly correlated
90 ZNF589 1 28.9 Weakly correlated
91 ZNF671 1 94.0 Weakly correlated
92 ZNF695 1 28.9 Weakly correlated
93 ZNF707 1 74.0 Weakly correlated
94 ZNF718 1 19.6 Weakly correlated
95 ZNF730 1 19.6 Weakly correlated
96 ZNF75A 1 94.0 Weakly correlated
97 ZNF786 1 99.0 Weakly correlated
98 ZNF7 1 99.0 Weakly correlated
99 ZNF829 1 99.0 Weakly correlated
100 ZNF879 1 99.0 Weakly correlated
101 ZNF8 1 99.0 Weakly correlated
102 ZNF92 1 28.9 Weakly correlated
103 ZNF93 1 8.6 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 ZNF91 91 6.0 Weakly correlated
2 ZNF461 53 99.0 Weakly correlated
3 ZNF611 48 19.6 Weakly correlated
4 ZNF705D 21 28.9 Weakly correlated
5 ZNF705B 19 28.9 Weakly correlated
6 ZNF560 11 43.0 Weakly correlated
7 ZNF101 6 43.0 Weakly correlated
8 ZKSCAN5 6 160.0 Weakly correlated
9 ZNF780A 5 43.0 Weakly correlated
10 ZNF28 5 28.9 Weakly correlated
11 ZNF394 5 99.0 Weakly correlated
12 ZNF282 5 319.0 Weakly correlated
13 ZNF202 4 160.0 Weakly correlated
14 ZNF263 4 180.0 Weakly correlated
15 ZNF140 4 99.0 Weakly correlated
16 ZNF347 3 43.0 Weakly correlated
17 ZNF141 2 43.0 Weakly correlated
18 ZNF479 1 6.4 Weakly correlated
19 ZNF14 1 69.0 Weakly correlated
20 ZNF18 1 160.0 Weakly correlated
21 ZNF324 1 99.0 Weakly correlated
22 ZNF182 1 99.0 Weakly correlated
23 ZNF257 1 0.0 Highly correlated
24 ZNF519 1 19.6 Weakly correlated
25 ZNF534 1 19.6 Weakly correlated
26 ZNF585B 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 ZKSCAN5 160.0 Weakly correlated
2 ZNF560 43.0 Weakly correlated
3 ZNF611 19.6 Weakly correlated
4 ZNF705D 28.9 Weakly correlated