ZRdb KZFP & Repeats
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Retroposon_SVA_A

  • Name
    SVA_A
  • Repbase
    SVA_A
  • Type
    Retroposon
  • Emergence
    19.6 Mya
  • Dfam Id
    DF0001067
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 2000bp. The 3' end is formed by a portion of a HERVKLTR (the SINE-R feature) .
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
ctctccctctccctctccctctccctctccctctccctctccctctcccctctttccacggtctccctctgttgccgaggctggactgcactgccgtgatctcggctcgctgcaacctccctgcctcgggctccagcgatcctcctgcctcggcctcccgagtgcctgggattgcaggcgcgcgccgccacgcctgactggtttttgtatttttggtggagacggggtctcgccgtgttgnccgggctggtctcnagctcctggcctcgagcgatccgcccgcctcggcctcccgaggtgctgggattgcagacggagtctcgctcactcaatgctcaatgtcgcccaggctggagtgcagtggcgtgatctcggctcgctacaacctccacctcccagccgcctgccttggcctcccaaagtgctaggattgcagcctctgcccggccgccaccccgtctgggaagtgaggagcgtctctgcccggccgcccatcgtctgggangtgaggagcgcctctgcccggccgccccgtctgggaagtgaggagcgcctctgcccggccgccgccccgtctgggaagtgaggagcgcctctgcccggccgcccntcgtctgggangtgaggagcgcctccgcccggccgccccgtctgggangtgaggagcgcctccgcccggccagccgccccgtccgggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggtgaggggcgcctctgcccggccgccccnnctgggaagtgaggagcccctctgcccggccgccgccccgtccgggaggtgtacccagcgaccatcgagaacgggccatgatgacgatggcggttttgtcgaaaagaaaagggggaaatgtggggaaaagaaagagagatcagattgttactgtgtctgtgtagaaagaagtagacataggagactccattttgttctgtactaagaaaaattcttctgccttgggatgctgttaatctataaccttacccccaaccccgtgctctctgaaacatgtgctgtgtcaactcagggttaaatggattaagggcggtgcaagatgtgctttgttaaacagatgcttgaaggcagcatgctcgttaagagtcatcaccactccctaatctcaagtacccagggacacaaacactgcggaaggccgcagggacctctgcctaggaaaaccagagacctttgttcacgtgtttatctgctgaccttctctccactattatcctatgaccctgccacatccccctctccgagaaacacccaagaatgatcaataaatactaaaaaaaaaaaaa
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 ZNF611 249 19.6 Highly correlated
2 ZNF91 249 6.0 Moderately correlated
3 ZNF705B 157 28.9 Weakly correlated
4 ZNF257 113 0.0 Weakly correlated
5 ZNF705D 96 28.9 Weakly correlated
6 ZNF560 82 43.0 Weakly correlated
7 ZNF28 81 28.9 Weakly correlated
8 ZNF263 63 180.0 Weakly correlated
9 ZFP57 49 87.0 Weakly correlated
10 ZNF382 46 99.0 Weakly correlated
11 ZNF394 24 99.0 Weakly correlated
12 ZKSCAN5 23 160.0 Weakly correlated
13 ZNF2 20 99.0 Weakly correlated
14 ZNF766 16 43.0 Weakly correlated
15 ZNF141 15 43.0 Weakly correlated
16 ZNF610 15 28.9 Weakly correlated
17 ZFP37 13 99.0 Weakly correlated
18 ZNF468 12 28.9 Weakly correlated
19 ZNF519 12 19.6 Highly correlated
20 ZNF18 11 160.0 Weakly correlated
21 ZNF202 11 160.0 Weakly correlated
22 ZNF324 11 99.0 Weakly correlated
23 ZNF589 11 28.9 Weakly correlated
24 ZNF282 10 319.0 Weakly correlated
25 ZKSCAN8 9 160.0 Weakly correlated
26 ZNF101 9 43.0 Weakly correlated
27 ZNF461 9 99.0 Weakly correlated
28 ZNF140 8 99.0 Weakly correlated
29 ZNF197 8 99.0 Weakly correlated
30 ZFP69B 7 99.0 Weakly correlated
31 ZKSCAN1 7 160.0 Weakly correlated
32 ZNF175 7 94.0 Weakly correlated
33 ZNF506 7 28.9 Weakly correlated
34 ZNF317 6 99.0 Weakly correlated
35 ZNF534 6 19.6 Highly correlated
36 ZNF558 6 99.0 Weakly correlated
37 ZNF649 6 28.9 Weakly correlated
38 ZNF680 6 28.9 Weakly correlated
39 ZNF479 5 6.4 Moderately correlated
40 ZNF641 5 99.0 Weakly correlated
41 ZNF679 5 28.9 Weakly correlated
42 ZNF792 5 94.0 Weakly correlated
43 ZNF169 4 94.0 Weakly correlated
44 ZNF251 4 94.0 Weakly correlated
45 ZNF264 4 99.0 Weakly correlated
46 ZNF547 4 74.0 Weakly correlated
47 ZNF554 4 99.0 Weakly correlated
48 ZNF584 4 99.0 Weakly correlated
49 ZNF705E 4 0.0 Weakly correlated
50 ZNF707 4 74.0 Weakly correlated
51 ZNF793 4 99.0 Weakly correlated
52 ZIM3 3 87.0 Weakly correlated
53 ZNF136 3 74.0 Weakly correlated
54 ZNF182 3 99.0 Weakly correlated
55 ZNF273 3 28.9 Weakly correlated
56 ZNF284 3 43.0 Weakly correlated
57 ZNF334 3 99.0 Weakly correlated
58 ZNF347 3 43.0 Weakly correlated
59 ZNF605 3 99.0 Weakly correlated
60 ZNF723 3 15.2 Moderately correlated
61 ZNF8 3 99.0 Weakly correlated
62 ZFP28 2 99.0 Weakly correlated
63 ZNF26 2 99.0 Weakly correlated
64 ZNF30 2 94.0 Weakly correlated
65 ZNF778 2 74.0 Weakly correlated
66 ZNF780A 2 43.0 Weakly correlated
67 ZNF92 2 28.9 Weakly correlated
68 ZFP30 1 99.0 Weakly correlated
69 ZFP82 1 99.0 Weakly correlated
70 ZKSCAN4 1 99.0 Weakly correlated
71 ZNF100 1 28.9 Weakly correlated
72 ZNF124 1 43.0 Weakly correlated
73 ZNF12 1 99.0 Weakly correlated
74 ZNF154 1 94.0 Weakly correlated
75 ZNF177 1 94.0 Weakly correlated
76 ZNF230 1 28.9 Weakly correlated
77 ZNF286A 1 160.0 Weakly correlated
78 ZNF302 1 43.0 Weakly correlated
79 ZNF304 1 99.0 Weakly correlated
80 ZNF445 1 99.0 Weakly correlated
81 ZNF486 1 8.6 Moderately correlated
82 ZNF510 1 99.0 Weakly correlated
83 ZNF528 1 43.0 Weakly correlated
84 ZNF544 1 0.0 Weakly correlated
85 ZNF549 1 87.0 Weakly correlated
86 ZNF557 1 15.2 Moderately correlated
87 ZNF559 1 74.0 Weakly correlated
88 ZNF567 1 99.0 Weakly correlated
89 ZNF573 1 94.0 Weakly correlated
90 ZNF585A 1 99.0 Weakly correlated
91 ZNF587 1 28.9 Weakly correlated
92 ZNF607 1 43.0 Weakly correlated
93 ZNF671 1 94.0 Weakly correlated
94 ZNF675 1 8.6 Moderately correlated
95 ZNF699 1 99.0 Weakly correlated
96 ZNF747 1 43.0 Weakly correlated
97 ZNF763 1 15.2 Moderately correlated
98 ZNF765 1 8.6 Moderately correlated
99 ZNF823 1 43.0 Weakly correlated
100 ZNF84 1 99.0 Weakly correlated
101 ZNF878 1 43.0 Weakly correlated
102 ZNF879 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 ZNF611 229 19.6 Highly correlated
2 ZNF91 210 6.0 Moderately correlated
3 ZNF28 71 28.9 Weakly correlated
4 ZNF705D 65 28.9 Weakly correlated
5 ZNF705B 63 28.9 Weakly correlated
6 ZNF263 27 180.0 Weakly correlated
7 ZKSCAN5 20 160.0 Weakly correlated
8 ZNF141 10 43.0 Weakly correlated
9 ZNF461 8 99.0 Weakly correlated
10 ZNF560 7 43.0 Weakly correlated
11 ZNF282 6 319.0 Weakly correlated
12 ZNF257 6 0.0 Weakly correlated
13 ZNF468 6 28.9 Weakly correlated
14 ZNF140 5 99.0 Weakly correlated
15 ZNF610 3 28.9 Weakly correlated
16 ZNF506 3 28.9 Weakly correlated
17 ZNF202 3 160.0 Weakly correlated
18 ZNF169 3 94.0 Weakly correlated
19 ZFP37 3 99.0 Weakly correlated
20 ZNF101 3 43.0 Weakly correlated
21 ZNF324 3 99.0 Weakly correlated
22 ZFP57 2 87.0 Weakly correlated
23 ZNF264 2 99.0 Weakly correlated
24 ZNF641 2 99.0 Weakly correlated
25 ZNF519 2 19.6 Highly correlated
26 ZNF680 2 28.9 Weakly correlated
27 ZNF182 1 99.0 Weakly correlated
28 ZNF382 1 99.0 Weakly correlated
29 ZKSCAN4 1 99.0 Weakly correlated
30 ZNF605 1 99.0 Weakly correlated
31 ZNF780A 1 43.0 Weakly correlated
32 ZNF544 1 0.0 Weakly correlated
33 ZNF479 1 6.4 Moderately correlated
34 ZNF445 1 99.0 Weakly correlated
35 ZNF317 1 99.0 Weakly correlated
36 ZNF18 1 160.0 Weakly correlated
37 ZNF334 1 99.0 Weakly correlated
38 ZNF284 1 43.0 Weakly correlated
39 ZNF823 1 43.0 Weakly correlated
40 ZNF534 1 19.6 Highly correlated
41 ZNF2 1 99.0 Weakly correlated
42 ZNF394 1 99.0 Weakly correlated
43 ZNF273 1 28.9 Weakly correlated
44 ZFP30 1 99.0 Weakly correlated
45 ZNF154 1 94.0 Weakly correlated
46 ZNF136 1 74.0 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 ZNF141 43.0 Weakly correlated
3 ZNF257 0.0 Weakly correlated
4 ZNF263 180.0 Weakly correlated
5 ZNF282 319.0 Weakly correlated
6 ZNF468 28.9 Weakly correlated
7 ZNF560 43.0 Weakly correlated
8 ZNF611 19.6 Highly correlated
9 ZNF705D 28.9 Weakly correlated