ZRdb KZFP & Repeats
...

LTR_MSTD

  • Name
    MSTD
  • Repbase
    MSTD
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0001045
Description :

MSTD has 5 bp TSDs, and it represents an intermediate subfamily betweenMSTC and MLT1A LTRs. Note that a full-length ERV-MaLR (Mammalianapparent LTR retrotransposon) element is derived from an ERV (EndogenousRetrovirus), but only contains the Gag gene (that is, no Pol or Env).
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgctatggtttgaatgtgtcccccaaagttcatgtgttggaaacttaatccccaatgcaacagtgttgggaggtggggcctnntaagaggtgattaggtcatgagggctccgccctcatgaatggattaatgccgttatcgcgggagtgggttagttatcgcgggagtgggttcgttataaaagnaagttcggcccccttttgctctctctctctcgctctcttgcccttccgccttccgccatgggatgacgcagcaagaaggccctcgccagatgccggcncctcgatcttggacttcccagcctccagaaccgtgagccaaataaatttctgttctttataaattacccagtctgtggtattctgttatagcagcacaaaacggactaagaca
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. :
...
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 ZNF778 1558 74.0 Highly correlated
2 ZNF564 239 74.0 Highly correlated
3 ZNF382 221 99.0 Weakly correlated
4 ZNF766 182 43.0 Weakly correlated
5 ZNF705B 108 28.9 Weakly correlated
6 ZNF534 85 19.6 Weakly correlated
7 ZNF705D 83 28.9 Weakly correlated
8 ZIM3 65 87.0 Weakly correlated
9 ZNF680 59 28.9 Weakly correlated
10 ZNF394 56 99.0 Weakly correlated
11 ZNF263 46 180.0 Weakly correlated
12 ZNF175 43 94.0 Weakly correlated
13 ZNF679 39 28.9 Weakly correlated
14 ZNF251 37 94.0 Weakly correlated
15 ZNF589 33 28.9 Weakly correlated
16 ZNF707 29 74.0 Highly correlated
17 ZNF317 27 99.0 Weakly correlated
18 ZFP37 25 99.0 Weakly correlated
19 ZNF257 25 0.0 Weakly correlated
20 ZNF320 24 28.9 Weakly correlated
21 ZNF723 21 15.2 Weakly correlated
22 ZFP69B 20 99.0 Weakly correlated
23 ZNF558 20 99.0 Weakly correlated
24 ZNF793 20 99.0 Weakly correlated
25 ZNF18 18 160.0 Weakly correlated
26 ZNF2 18 99.0 Weakly correlated
27 ZNF350 18 99.0 Weakly correlated
28 ZKSCAN1 17 160.0 Weakly correlated
29 ZNF584 17 99.0 Weakly correlated
30 ZKSCAN8 16 160.0 Weakly correlated
31 ZNF324 16 99.0 Weakly correlated
32 ZNF101 15 43.0 Weakly correlated
33 ZNF197 15 99.0 Weakly correlated
34 ZNF792 15 94.0 Weakly correlated
35 ZNF169 14 94.0 Weakly correlated
36 ZNF479 14 6.4 Weakly correlated
37 ZNF425 13 94.0 Weakly correlated
38 ZNF682 12 28.9 Weakly correlated
39 ZNF8 12 99.0 Weakly correlated
40 ZFP57 10 87.0 Weakly correlated
41 ZNF202 10 160.0 Weakly correlated
42 ZNF490 10 43.0 Weakly correlated
43 ZNF554 9 99.0 Weakly correlated
44 ZNF563 8 28.9 Weakly correlated
45 ZNF597 8 94.0 Weakly correlated
46 ZNF610 8 28.9 Weakly correlated
47 ZNF75D 8 94.0 Weakly correlated
48 ZNF528 7 43.0 Weakly correlated
49 ZNF735 7 28.9 Weakly correlated
50 ZNF92 7 28.9 Weakly correlated
51 ZNF133 6 99.0 Weakly correlated
52 ZNF274 6 99.0 Weakly correlated
53 ZNF641 6 99.0 Weakly correlated
54 ZKSCAN5 5 160.0 Weakly correlated
55 ZNF140 5 99.0 Weakly correlated
56 ZNF347 5 43.0 Weakly correlated
57 ZNF429 5 28.9 Weakly correlated
58 ZNF585B 5 99.0 Weakly correlated
59 ZNF136 4 74.0 Highly correlated
60 ZNF141 4 43.0 Weakly correlated
61 ZNF28 4 28.9 Weakly correlated
62 ZNF441 4 43.0 Weakly correlated
63 ZNF506 4 28.9 Weakly correlated
64 ZNF585A 4 99.0 Weakly correlated
65 ZNF671 4 94.0 Weakly correlated
66 ZNF331 3 94.0 Weakly correlated
67 ZNF334 3 99.0 Weakly correlated
68 ZNF354C 3 99.0 Weakly correlated
69 ZNF41 3 99.0 Weakly correlated
70 ZNF468 3 28.9 Weakly correlated
71 ZNF486 3 8.6 Weakly correlated
72 ZNF786 3 99.0 Weakly correlated
73 ZNF816 3 28.9 Weakly correlated
74 ZNF100 2 28.9 Weakly correlated
75 ZNF157 2 99.0 Weakly correlated
76 ZNF160 2 74.0 Highly correlated
77 ZNF182 2 99.0 Weakly correlated
78 ZNF248 2 99.0 Weakly correlated
79 ZNF264 2 99.0 Weakly correlated
80 ZNF282 2 319.0 Weakly correlated
81 ZNF284 2 43.0 Weakly correlated
82 ZNF304 2 99.0 Weakly correlated
83 ZNF30 2 94.0 Weakly correlated
84 ZNF33A 2 99.0 Weakly correlated
85 ZNF445 2 99.0 Weakly correlated
86 ZNF44 2 43.0 Weakly correlated
87 ZNF471 2 94.0 Weakly correlated
88 ZNF485 2 94.0 Weakly correlated
89 ZNF510 2 99.0 Weakly correlated
90 ZNF519 2 19.6 Weakly correlated
91 ZNF567 2 99.0 Weakly correlated
92 ZNF695 2 28.9 Weakly correlated
93 ZNF701 2 28.9 Weakly correlated
94 ZNF716 2 19.6 Weakly correlated
95 ZNF730 2 19.6 Weakly correlated
96 ZNF823 2 43.0 Weakly correlated
97 RBAK 1 99.0 Weakly correlated
98 ZFP30 1 99.0 Weakly correlated
99 ZKSCAN2 1 180.0 Weakly correlated
100 ZNF135 1 94.0 Weakly correlated
101 ZNF286A 1 160.0 Weakly correlated
102 ZNF287 1 99.0 Weakly correlated
103 ZNF337 1 43.0 Weakly correlated
104 ZNF33B 1 99.0 Weakly correlated
105 ZNF343 1 74.0 Highly correlated
106 ZNF383 1 99.0 Weakly correlated
107 ZNF417 1 28.9 Weakly correlated
108 ZNF420 1 94.0 Weakly correlated
109 ZNF430 1 19.6 Weakly correlated
110 ZNF436 1 180.0 Weakly correlated
111 ZNF43 1 43.0 Weakly correlated
112 ZNF484 1 99.0 Weakly correlated
113 ZNF514 1 94.0 Weakly correlated
114 ZNF547 1 74.0 Highly correlated
115 ZNF548 1 94.0 Weakly correlated
116 ZNF549 1 87.0 Weakly correlated
117 ZNF565 1 99.0 Weakly correlated
118 ZNF568 1 99.0 Weakly correlated
119 ZNF571 1 99.0 Weakly correlated
120 ZNF573 1 94.0 Weakly correlated
121 ZNF583 1 99.0 Weakly correlated
122 ZNF611 1 19.6 Weakly correlated
123 ZNF616 1 43.0 Weakly correlated
124 ZNF674 1 99.0 Weakly correlated
125 ZNF727 1 19.6 Weakly correlated
126 ZNF763 1 15.2 Weakly correlated
127 ZNF765 1 8.6 Weakly correlated
128 ZNF777 1 319.0 Weakly correlated
129 ZNF780A 1 43.0 Weakly correlated
130 ZNF799 1 43.0 Weakly correlated
131 ZNF808 1 19.6 Weakly correlated
132 ZNF845 1 28.9 Weakly correlated
133 ZNF880 1 28.9 Weakly correlated
134 ZNF891 1 99.0 Weakly correlated
135 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 ZNF778 958 74.0 Highly correlated
2 ZNF564 209 74.0 Highly correlated
3 ZNF766 55 43.0 Weakly correlated
4 ZNF534 54 19.6 Weakly correlated
5 ZIM3 31 87.0 Weakly correlated
6 ZNF705D 22 28.9 Weakly correlated
7 ZNF705B 22 28.9 Weakly correlated
8 ZNF263 13 180.0 Weakly correlated
9 ZNF382 11 99.0 Weakly correlated
10 ZNF257 11 0.0 Weakly correlated
11 ZNF320 10 28.9 Weakly correlated
12 ZNF350 9 99.0 Weakly correlated
13 ZNF793 8 99.0 Weakly correlated
14 ZNF680 7 28.9 Weakly correlated
15 ZNF175 6 94.0 Weakly correlated
16 ZNF169 6 94.0 Weakly correlated
17 ZFP57 6 87.0 Weakly correlated
18 ZNF723 4 15.2 Weakly correlated
19 ZNF75D 4 94.0 Weakly correlated
20 ZNF479 4 6.4 Weakly correlated
21 ZKSCAN5 4 160.0 Weakly correlated
22 ZNF671 3 94.0 Weakly correlated
23 ZNF735 3 28.9 Weakly correlated
24 ZNF141 3 43.0 Weakly correlated
25 ZNF101 3 43.0 Weakly correlated
26 ZNF679 3 28.9 Weakly correlated
27 ZNF682 3 28.9 Weakly correlated
28 ZNF347 3 43.0 Weakly correlated
29 ZFP69B 2 99.0 Weakly correlated
30 ZNF816 2 28.9 Weakly correlated
31 ZNF584 2 99.0 Weakly correlated
32 ZNF18 2 160.0 Weakly correlated
33 ZNF468 2 28.9 Weakly correlated
34 ZNF597 2 94.0 Weakly correlated
35 ZNF707 2 74.0 Highly correlated
36 ZNF100 1 28.9 Weakly correlated
37 ZNF674 1 99.0 Weakly correlated
38 ZFP37 1 99.0 Weakly correlated
39 ZNF197 1 99.0 Weakly correlated
40 ZNF641 1 99.0 Weakly correlated
41 ZNF845 1 28.9 Weakly correlated
42 ZNF701 1 28.9 Weakly correlated
43 ZNF136 1 74.0 Highly correlated
44 ZNF589 1 28.9 Weakly correlated
45 ZNF33A 1 99.0 Weakly correlated
46 ZNF823 1 43.0 Weakly correlated
47 ZNF92 1 28.9 Weakly correlated
48 ZNF506 1 28.9 Weakly correlated
49 ZNF343 1 74.0 Highly correlated
50 ZNF394 1 99.0 Weakly correlated
51 ZNF2 1 99.0 Weakly correlated
52 ZNF133 1 99.0 Weakly correlated
53 ZNF28 1 28.9 Weakly correlated
54 ZNF324 1 99.0 Weakly correlated
55 ZNF695 1 28.9 Weakly correlated
56 ZNF585B 1 99.0 Weakly correlated
57 ZNF716 1 19.6 Weakly correlated
58 ZNF792 1 94.0 Weakly correlated
59 ZNF140 1 99.0 Weakly correlated
60 ZNF251 1 94.0 Weakly correlated
61 ZNF202 1 160.0 Weakly correlated
62 ZNF429 1 28.9 Weakly correlated
63 ZNF510 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 ZFP57 87.0 Weakly correlated
2 ZNF175 94.0 Weakly correlated
3 ZNF257 0.0 Weakly correlated
4 ZNF534 19.6 Weakly correlated
5 ZNF705D 28.9 Weakly correlated