ZRdb KZFP & Repeats
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Retroposon_SVA_F

  • Name
    SVA_F
  • Repbase
    SVA_F
  • Type
    Retroposon
  • Emergence
    0.0 Mya
  • Dfam Id
    DF0001072
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_F 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. :
ctctccctctccctctccctctccctctccctctccctctccctctcccctctttccacggtctccctctcatgcggagccgaagctggactgtactgctgccatctcggctcactgcaacctccctgcctgattctcctgcctcagcctgccgagtgcctgcgattgcaggcacgcgccgccacgcctgactggttttggtggagacggggtttcgctgtgttggccgggccggtctccagcccctaaccgcgagtgatccgccagcctcggcctcccgaggtgccgggattgcagacggagtctcgttcactcagtgctcaatggtgcccaggctggagtgcagtggcgtgatctcggctcgctacaacctacacctcccagccgcctgccttggcctcccaaagtgccgagattgcagcctctgcccggccgccgccccgtctgggaggtgaggagcgcctctgcccggccgcccatcgtctgggangtgaggagcccctctgcccggccgccccgtctgggaggtgaggagcgcctccgcccggccgccgccccgtccgggaggtgaggagcgtctccgcccggccgcccnccgtccgggangtgaggagcgcctccgcccggccgccccgtccgggangtgaggagcgcctccgcccggccagccgccccgtccgggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggaggtgggggggtcagccccccgcccggccagccgccccgtccgggaggtgaggggcgcctctgcccggccgcccctactgggaagtgaggagcccctctgcccggccaccgccccgtccgggaggtgtgcccaacagctcattgagaacgggccaggatgacaatggcggctttgtggaatagaaaggcgggaaaggtggggaaaagattgagaaatcggatggttgccgtgtctgtgtagaaagaagtagacatgggagacttttcattttgttctgcactaagaaaaattcctctgccttgggatcctgttgatctgtgaccttacccccaaccctgtgctctctgaaacatgtgctgtgtccactcagggttaaatggattaagggcggtgcaagatgtgctttgttaaacagatgcttgaaggcagcatgctcgttaagagtcatcaccaatccctaatctcaagtaatcagggacacaaacactgcggaaggccgcagggtcctctgcctaggaaaaccagagacctttgttcacttgtttatctgctgaccttccctccactattgtcccatgaccctgccaaatccccctctgtgagaaacacccaagaattatcaataaaaaaaatnaaaaaaaaaa
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 742 28.9 Weakly correlated
2 ZNF705D 495 28.9 Weakly correlated
3 ZNF91 489 6.0 Weakly correlated
4 ZNF611 344 19.6 Weakly correlated
5 ZNF461 202 99.0 Weakly correlated
6 ZNF560 176 43.0 Weakly correlated
7 ZFP57 58 87.0 Weakly correlated
8 ZNF28 58 28.9 Weakly correlated
9 ZNF282 54 319.0 Weakly correlated
10 ZNF705E 49 0.0 Highly correlated
11 ZNF263 47 180.0 Weakly correlated
12 ZNF763 46 15.2 Weakly correlated
13 ZNF878 40 43.0 Weakly correlated
14 ZNF735 30 28.9 Weakly correlated
15 ZNF500 29 160.0 Weakly correlated
16 ZNF202 27 160.0 Weakly correlated
17 ZKSCAN5 25 160.0 Weakly correlated
18 ZNF253 25 19.6 Weakly correlated
19 ZNF347 25 43.0 Weakly correlated
20 ZNF519 25 19.6 Weakly correlated
21 ZNF607 24 43.0 Weakly correlated
22 ZNF382 22 99.0 Weakly correlated
23 ZNF394 21 99.0 Weakly correlated
24 ZNF641 20 99.0 Weakly correlated
25 ZNF649 17 28.9 Weakly correlated
26 ZNF726 16 28.9 Weakly correlated
27 ZNF14 15 69.0 Weakly correlated
28 ZNF18 15 160.0 Weakly correlated
29 ZNF624 15 99.0 Weakly correlated
30 ZNF723 14 15.2 Weakly correlated
31 ZNF234 13 99.0 Weakly correlated
32 ZNF257 12 0.0 Highly correlated
33 ZNF679 12 28.9 Weakly correlated
34 ZNF747 12 43.0 Weakly correlated
35 ZNF813 12 28.9 Weakly correlated
36 ZNF510 10 99.0 Weakly correlated
37 ZNF699 10 99.0 Weakly correlated
38 ZNF528 9 43.0 Weakly correlated
39 ZNF558 9 99.0 Weakly correlated
40 ZNF334 8 99.0 Weakly correlated
41 ZNF610 8 28.9 Weakly correlated
42 ZNF852 8 94.0 Weakly correlated
43 ZNF101 7 43.0 Weakly correlated
44 ZNF468 7 28.9 Weakly correlated
45 ZNF534 7 19.6 Weakly correlated
46 ZFP69B 6 99.0 Weakly correlated
47 ZNF230 6 28.9 Weakly correlated
48 ZNF286A 6 160.0 Weakly correlated
49 ZNF2 6 99.0 Weakly correlated
50 ZNF559 6 74.0 Weakly correlated
51 ZNF66 6 0.0 Highly correlated
52 ZNF766 6 43.0 Weakly correlated
53 ZFP37 5 99.0 Weakly correlated
54 ZNF324 5 99.0 Weakly correlated
55 ZNF730 5 19.6 Weakly correlated
56 ZIM3 4 87.0 Weakly correlated
57 ZNF136 4 74.0 Weakly correlated
58 ZNF169 4 94.0 Weakly correlated
59 ZNF175 4 94.0 Weakly correlated
60 ZNF197 4 99.0 Weakly correlated
61 ZNF251 4 94.0 Weakly correlated
62 ZNF420 4 94.0 Weakly correlated
63 ZNF589 4 28.9 Weakly correlated
64 ZNF605 4 99.0 Weakly correlated
65 ZNF680 4 28.9 Weakly correlated
66 ZNF780A 4 43.0 Weakly correlated
67 ZKSCAN8 3 160.0 Weakly correlated
68 ZNF141 3 43.0 Weakly correlated
69 ZNF317 3 99.0 Weakly correlated
70 ZNF473 3 43.0 Weakly correlated
71 ZNF547 3 74.0 Weakly correlated
72 ZKSCAN1 2 160.0 Weakly correlated
73 ZNF157 2 99.0 Weakly correlated
74 ZNF182 2 99.0 Weakly correlated
75 ZNF221 2 74.0 Weakly correlated
76 ZNF284 2 43.0 Weakly correlated
77 ZNF30 2 94.0 Weakly correlated
78 ZNF425 2 94.0 Weakly correlated
79 ZNF445 2 99.0 Weakly correlated
80 ZNF471 2 94.0 Weakly correlated
81 ZNF479 2 6.4 Weakly correlated
82 ZNF506 2 28.9 Weakly correlated
83 ZNF514 2 94.0 Weakly correlated
84 ZNF551 2 94.0 Weakly correlated
85 ZNF583 2 99.0 Weakly correlated
86 ZNF584 2 99.0 Weakly correlated
87 ZNF585B 2 99.0 Weakly correlated
88 ZNF718 2 19.6 Weakly correlated
89 ZNF75D 2 94.0 Weakly correlated
90 ZNF77 2 87.0 Weakly correlated
91 ZNF92 2 28.9 Weakly correlated
92 ZFP69 1 99.0 Weakly correlated
93 ZNF114 1 28.9 Weakly correlated
94 ZNF140 1 99.0 Weakly correlated
95 ZNF160 1 74.0 Weakly correlated
96 ZNF20 1 43.0 Weakly correlated
97 ZNF215 1 99.0 Weakly correlated
98 ZNF229 1 99.0 Weakly correlated
99 ZNF233 1 99.0 Weakly correlated
100 ZNF248 1 99.0 Weakly correlated
101 ZNF302 1 43.0 Weakly correlated
102 ZNF33A 1 99.0 Weakly correlated
103 ZNF426 1 87.0 Weakly correlated
104 ZNF436 1 180.0 Weakly correlated
105 ZNF440 1 28.9 Weakly correlated
106 ZNF441 1 43.0 Weakly correlated
107 ZNF44 1 43.0 Weakly correlated
108 ZNF454 1 99.0 Weakly correlated
109 ZNF480 1 43.0 Weakly correlated
110 ZNF490 1 43.0 Weakly correlated
111 ZNF550 1 94.0 Weakly correlated
112 ZNF554 1 99.0 Weakly correlated
113 ZNF565 1 99.0 Weakly correlated
114 ZNF569 1 99.0 Weakly correlated
115 ZNF573 1 94.0 Weakly correlated
116 ZNF57 1 28.9 Weakly correlated
117 ZNF616 1 43.0 Weakly correlated
118 ZNF695 1 28.9 Weakly correlated
119 ZNF701 1 28.9 Weakly correlated
120 ZNF717 1 0.0 Highly correlated
121 ZNF75A 1 94.0 Weakly correlated
122 ZNF778 1 74.0 Weakly correlated
123 ZNF792 1 94.0 Weakly correlated
124 ZNF793 1 99.0 Weakly correlated
125 ZNF816 1 28.9 Weakly correlated
126 ZNF823 1 43.0 Weakly correlated
127 ZNF84 1 99.0 Weakly correlated
128 ZNF8 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 ZNF91 405 6.0 Weakly correlated
2 ZNF611 319 19.6 Weakly correlated
3 ZNF461 184 99.0 Weakly correlated
4 ZNF705B 65 28.9 Weakly correlated
5 ZNF705D 54 28.9 Weakly correlated
6 ZNF28 45 28.9 Weakly correlated
7 ZNF282 33 319.0 Weakly correlated
8 ZNF560 29 43.0 Weakly correlated
9 ZKSCAN5 22 160.0 Weakly correlated
10 ZNF519 7 19.6 Weakly correlated
11 ZNF334 7 99.0 Weakly correlated
12 ZNF468 6 28.9 Weakly correlated
13 ZNF263 6 180.0 Weakly correlated
14 ZNF347 5 43.0 Weakly correlated
15 ZNF610 4 28.9 Weakly correlated
16 ZNF18 4 160.0 Weakly correlated
17 ZNF141 3 43.0 Weakly correlated
18 ZNF780A 3 43.0 Weakly correlated
19 ZNF169 2 94.0 Weakly correlated
20 ZNF394 2 99.0 Weakly correlated
21 ZNF101 2 43.0 Weakly correlated
22 ZNF2 1 99.0 Weakly correlated
23 ZNF558 1 99.0 Weakly correlated
24 ZNF445 1 99.0 Weakly correlated
25 ZNF823 1 43.0 Weakly correlated
26 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 ZNF263 180.0 Weakly correlated
3 ZNF282 319.0 Weakly correlated
4 ZNF519 19.6 Weakly correlated
5 ZNF560 43.0 Weakly correlated
6 ZNF611 19.6 Weakly correlated
7 ZNF705D 28.9 Weakly correlated