ZRdb KZFP & Repeats
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Retroposon_SVA_C

  • Name
    SVA_C
  • Repbase
    SVA_C
  • Type
    Retroposon
  • Emergence
    15.2 Mya
  • Dfam Id
    DF0001069
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. :
ctctccctctccctctccctctccctctccctctccctctccctctcccctctttccacggtctccctctgatgccgagccgaagctggactgtactgccgccatctcggctcactgcaacctccctgcctgattctcctgcctcagcctgccgagtgcctgcgattgcaggcgcgcgccgccacgcctgactggttttcgtatttttttggtggagacggggtttcgctgtgttggccgggctggtctccagctcctaaccgcgagtgatccgccagcctcggcctcccgaggtgccgggattgcagacggagtctcgttcactcagtgctcaatgttgcccaggctggagtgcagtggcgtgatctcggctcgctacaacctccacctcccagccgcctgccttggcctcccaaagtgccgagattgcagcctctgcccggccgccaccccgtctgggaagtgaggagcgtctctgcctggccgcccatcgtctgggatgtgaggagcccctctgcccggctgcccagtctgggaagtgaggagcgcctcttcccggccgccatcccgtctaggaagtgaggagcgtctctgcccggccgcccatcgtctgagatgtggggagcgcctctgccccgccgccccgtctgggatgtgaggagcgcctctgcccggccagccgccccgtctgggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggtggggggcgcctctgcccggccgccccttctgggaagtgaggagcccctctgcccggccgccaccccgtctgggaggtgtacccaacagctcattgagaacgggccatgatgacgatggcggttttgtcgaatagaaaagggggaaatgtggggaaaagatagagaaatcagattgttgctgtgtctgtgtagaaagaagtagacatgggagactccattttgttctgtactaagaaaaattcttctgccttgggatgctgttgatctatgaccttacccccaacccngtgctctctgaaacatgtgctgtgtccactcagggttaaatggattaagggcggtgcaagatgtgctttgttaaacagatgcttgaaggcagcatgctcgttaagagtcatcaccactccctaatctcaagtacccagggacacaaacactgcggaaggccgcagggtcctctgcctaggaaaaccagagacctttgttcacttgtttatctgctgaccttccctccactattgtcctatgaccctgccaaatccccctctgcgagaaacacccaagaatgatcaataaaaaaaaaaaaaaaaaaaa
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 ZNF91 339 6.0 Moderately correlated
2 ZNF705B 305 28.9 Weakly correlated
3 ZNF611 197 19.6 Weakly correlated
4 ZNF705D 196 28.9 Weakly correlated
5 ZNF141 58 43.0 Weakly correlated
6 ZNF560 48 43.0 Weakly correlated
7 ZNF202 36 160.0 Weakly correlated
8 ZFP57 34 87.0 Weakly correlated
9 ZNF28 34 28.9 Weakly correlated
10 ZNF282 22 319.0 Weakly correlated
11 ZNF519 19 19.6 Weakly correlated
12 ZNF394 18 99.0 Weakly correlated
13 ZNF461 16 99.0 Weakly correlated
14 ZNF2 13 99.0 Weakly correlated
15 ZNF382 13 99.0 Weakly correlated
16 ZNF649 13 28.9 Weakly correlated
17 ZNF705E 12 0.0 Weakly correlated
18 ZNF257 11 0.0 Weakly correlated
19 ZFP37 10 99.0 Weakly correlated
20 ZKSCAN5 8 160.0 Weakly correlated
21 ZNF610 8 28.9 Weakly correlated
22 ZNF263 7 180.0 Weakly correlated
23 ZNF780A 6 43.0 Weakly correlated
24 ZNF347 5 43.0 Weakly correlated
25 ZNF534 5 19.6 Weakly correlated
26 ZNF641 5 99.0 Weakly correlated
27 ZNF680 5 28.9 Weakly correlated
28 ZNF101 4 43.0 Weakly correlated
29 ZNF140 4 99.0 Weakly correlated
30 ZNF18 4 160.0 Weakly correlated
31 ZNF468 4 28.9 Weakly correlated
32 ZNF763 4 15.2 Highly correlated
33 ZNF136 3 74.0 Weakly correlated
34 ZNF169 3 94.0 Weakly correlated
35 ZNF251 3 94.0 Weakly correlated
36 ZNF284 3 43.0 Weakly correlated
37 ZNF334 3 99.0 Weakly correlated
38 ZNF528 3 43.0 Weakly correlated
39 ZNF558 3 99.0 Weakly correlated
40 ZNF607 3 43.0 Weakly correlated
41 ZNF679 3 28.9 Weakly correlated
42 ZNF707 3 74.0 Weakly correlated
43 ZNF75D 3 94.0 Weakly correlated
44 ZNF766 3 43.0 Weakly correlated
45 ZFP69B 2 99.0 Weakly correlated
46 ZKSCAN1 2 160.0 Weakly correlated
47 ZNF124 2 43.0 Weakly correlated
48 ZNF160 2 74.0 Weakly correlated
49 ZNF182 2 99.0 Weakly correlated
50 ZNF20 2 43.0 Weakly correlated
51 ZNF215 2 99.0 Weakly correlated
52 ZNF273 2 28.9 Weakly correlated
53 ZNF302 2 43.0 Weakly correlated
54 ZNF485 2 94.0 Weakly correlated
55 ZNF500 2 160.0 Weakly correlated
56 ZNF506 2 28.9 Weakly correlated
57 ZNF573 2 94.0 Weakly correlated
58 ZNF584 2 99.0 Weakly correlated
59 ZNF589 2 28.9 Weakly correlated
60 ZNF677 2 99.0 Weakly correlated
61 ZNF682 2 28.9 Weakly correlated
62 ZNF723 2 15.2 Highly correlated
63 ZNF778 2 74.0 Weakly correlated
64 ZNF8 2 99.0 Weakly correlated
65 ZFP14 1 99.0 Weakly correlated
66 ZFP69 1 99.0 Weakly correlated
67 ZKSCAN2 1 180.0 Weakly correlated
68 ZKSCAN4 1 99.0 Weakly correlated
69 ZNF114 1 28.9 Weakly correlated
70 ZNF135 1 94.0 Weakly correlated
71 ZNF157 1 99.0 Weakly correlated
72 ZNF175 1 94.0 Weakly correlated
73 ZNF17 1 69.0 Weakly correlated
74 ZNF184 1 99.0 Weakly correlated
75 ZNF213 1 180.0 Weakly correlated
76 ZNF256 1 74.0 Weakly correlated
77 ZNF264 1 99.0 Weakly correlated
78 ZNF317 1 99.0 Weakly correlated
79 ZNF324 1 99.0 Weakly correlated
80 ZNF343 1 74.0 Weakly correlated
81 ZNF354A 1 99.0 Weakly correlated
82 ZNF416 1 43.0 Weakly correlated
83 ZNF419 1 28.9 Weakly correlated
84 ZNF425 1 94.0 Weakly correlated
85 ZNF429 1 28.9 Weakly correlated
86 ZNF445 1 99.0 Weakly correlated
87 ZNF44 1 43.0 Weakly correlated
88 ZNF460 1 74.0 Weakly correlated
89 ZNF471 1 94.0 Weakly correlated
90 ZNF479 1 6.4 Moderately correlated
91 ZNF487 1 28.9 Weakly correlated
92 ZNF514 1 94.0 Weakly correlated
93 ZNF543 1 99.0 Weakly correlated
94 ZNF544 1 0.0 Weakly correlated
95 ZNF548 1 94.0 Weakly correlated
96 ZNF554 1 99.0 Weakly correlated
97 ZNF562 1 28.9 Weakly correlated
98 ZNF563 1 28.9 Weakly correlated
99 ZNF583 1 99.0 Weakly correlated
100 ZNF597 1 94.0 Weakly correlated
101 ZNF605 1 99.0 Weakly correlated
102 ZNF616 1 43.0 Weakly correlated
103 ZNF66 1 0.0 Weakly correlated
104 ZNF675 1 8.6 Moderately correlated
105 ZNF688 1 160.0 Weakly correlated
106 ZNF689 1 99.0 Weakly correlated
107 ZNF726 1 28.9 Weakly correlated
108 ZNF727 1 19.6 Weakly correlated
109 ZNF730 1 19.6 Weakly correlated
110 ZNF746 1 99.0 Weakly correlated
111 ZNF761 1 19.6 Weakly correlated
112 ZNF765 1 8.6 Moderately correlated
113 ZNF772 1 94.0 Weakly correlated
114 ZNF791 1 87.0 Weakly correlated
115 ZNF792 1 94.0 Weakly correlated
116 ZNF805 1 99.0 Weakly correlated
117 ZNF814 1 0.0 Weakly correlated
118 ZNF81 1 99.0 Weakly correlated
119 ZNF823 1 43.0 Weakly correlated
120 ZNF84 1 99.0 Weakly correlated
121 ZNF850 1 28.9 Weakly correlated
122 ZNF878 1 43.0 Weakly correlated
123 ZNF879 1 99.0 Weakly correlated
124 ZNF90 1 8.6 Moderately correlated
125 ZNF92 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 ZNF91 271 6.0 Moderately correlated
2 ZNF611 195 19.6 Weakly correlated
3 ZNF705D 136 28.9 Weakly correlated
4 ZNF705B 110 28.9 Weakly correlated
5 ZNF141 57 43.0 Weakly correlated
6 ZNF28 32 28.9 Weakly correlated
7 ZNF461 16 99.0 Weakly correlated
8 ZNF282 15 319.0 Weakly correlated
9 ZNF202 9 160.0 Weakly correlated
10 ZKSCAN5 8 160.0 Weakly correlated
11 ZNF780A 6 43.0 Weakly correlated
12 ZNF560 4 43.0 Weakly correlated
13 ZNF347 4 43.0 Weakly correlated
14 ZNF334 3 99.0 Weakly correlated
15 ZNF263 3 180.0 Weakly correlated
16 ZNF101 2 43.0 Weakly correlated
17 ZNF18 2 160.0 Weakly correlated
18 ZNF610 2 28.9 Weakly correlated
19 ZNF485 2 94.0 Weakly correlated
20 ZNF169 2 94.0 Weakly correlated
21 ZNF468 2 28.9 Weakly correlated
22 ZNF519 2 19.6 Weakly correlated
23 ZNF140 2 99.0 Weakly correlated
24 ZNF563 1 28.9 Weakly correlated
25 ZNF257 1 0.0 Weakly correlated
26 ZNF680 1 28.9 Weakly correlated
27 ZNF416 1 43.0 Weakly correlated
28 ZNF534 1 19.6 Weakly correlated
29 ZNF92 1 28.9 Weakly correlated
30 ZNF17 1 69.0 Weakly correlated
31 ZNF394 1 99.0 Weakly correlated
32 ZNF479 1 6.4 Moderately correlated
33 ZNF506 1 28.9 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 ZNF202 160.0 Weakly correlated
4 ZNF282 319.0 Weakly correlated
5 ZNF611 19.6 Weakly correlated
6 ZNF705D 28.9 Weakly correlated