ZRdb KZFP & Repeats
...

LTR_MAMGYPLTR3

  • Name
    MAMGYPLTR3
  • Repbase
    MamGypLTR3
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000982
Description :

MamGypLTR3 has 4bp TSDs. The 5' end has not been fully reconstructed.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtagcgggatgccccgccagagattaaatttgtgtttttctctcttctctagcgagagaggtgccagaaaatcaccttggaatcactgagggnagtctcccttagaagggtaaatcaccttggaatcactgaaggtagcctccctcagaagggtggaaatagggcaccttggagtcactgagggtagcctcccttagaagggtggatgcagggcgagtagccccattgtccggaggaaaggggtgtaatcagaccctttgtgttttgagggtttaaaaggaaaagctgcccgacccctnggggtggatccctggggaggaaagggggacggtggttctgggtccgcgaggtggcagatgccggaaccagtcctgacccagcgctcctggggccggctggcgccctgggaggtggctgtgtatgtgaactgaaagagctgagcactaagagctgcaaccttgggagcccaagcgtggggcacccttggccgagcttagcactgagggagtgggatcgtcctccctcgaagaaccacngcggcctgtgcagggatctggaccagcaagggcatcaccgcagcagcggaccctggaatctgcaggaccagtcttcaacagcgacaccgtgtggcagcgagaagcaacggcagtagtggactgatcagactccagttctctccccgcttgggtgtggaagccggactgaccccccctttggactgcgtaagcccctagggttcttggacaattcagggggagggggaagcctcaagagggagatactggacttcctgctaataaggcaggtgggggctcgagcgattaattggaaaaataaaagagatgtgaccgtatttgtaccccgagtttgtggagcagttcataccggttaca
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 ZNF2 122 99.0 Highly correlated
2 ZNF382 90 99.0 Highly correlated
3 ZNF263 43 180.0 Weakly correlated
4 ZNF766 41 43.0 Weakly correlated
5 ZFP37 34 99.0 Highly correlated
6 ZNF18 34 160.0 Weakly correlated
7 ZNF394 33 99.0 Highly correlated
8 ZFP69B 27 99.0 Highly correlated
9 ZNF324 25 99.0 Highly correlated
10 ZNF101 21 43.0 Weakly correlated
11 ZKSCAN1 16 160.0 Weakly correlated
12 ZNF610 15 28.9 Weakly correlated
13 ZNF528 15 43.0 Weakly correlated
14 ZNF554 11 99.0 Highly correlated
15 ZNF558 10 99.0 Highly correlated
16 ZNF641 10 99.0 Highly correlated
17 ZNF792 10 94.0 Moderately correlated
18 ZNF679 9 28.9 Weakly correlated
19 ZNF701 9 28.9 Weakly correlated
20 ZNF320 9 28.9 Weakly correlated
21 ZNF197 8 99.0 Highly correlated
22 ZNF317 8 99.0 Highly correlated
23 ZNF479 7 6.4 Weakly correlated
24 ZNF534 7 19.6 Weakly correlated
25 ZNF547 7 74.0 Weakly correlated
26 ZNF506 5 28.9 Weakly correlated
27 ZNF735 5 28.9 Weakly correlated
28 ZNF589 4 28.9 Weakly correlated
29 ZKSCAN8 4 160.0 Weakly correlated
30 ZNF274 4 99.0 Highly correlated
31 ZNF680 4 28.9 Weakly correlated
32 ZNF778 3 74.0 Weakly correlated
33 ZKSCAN5 3 160.0 Weakly correlated
34 ZNF705D 3 28.9 Weakly correlated
35 ZIM3 3 87.0 Moderately correlated
36 ZNF28 3 28.9 Weakly correlated
37 ZNF667 2 99.0 Highly correlated
38 ZNF695 2 28.9 Weakly correlated
39 ZNF85 2 28.9 Weakly correlated
40 ZNF257 2 0.0 Weakly correlated
41 ZNF793 2 99.0 Highly correlated
42 ZNF560 2 43.0 Weakly correlated
43 ZNF264 2 99.0 Highly correlated
44 ZNF705B 2 28.9 Weakly correlated
45 ZNF441 2 43.0 Weakly correlated
46 ZNF440 2 28.9 Weakly correlated
47 ZNF707 2 74.0 Weakly correlated
48 ZNF8 2 99.0 Highly correlated
49 ZNF331 2 94.0 Moderately correlated
50 ZNF597 2 94.0 Moderately correlated
51 ZNF273 2 28.9 Weakly correlated
52 ZNF287 2 99.0 Highly correlated
53 ZNF92 1 28.9 Weakly correlated
54 ZNF671 1 94.0 Moderately correlated
55 ZNF700 1 28.9 Weakly correlated
56 ZNF723 1 15.2 Weakly correlated
57 ZNF860 1 0.0 Weakly correlated
58 ZNF84 1 99.0 Highly correlated
59 ZNF823 1 43.0 Weakly correlated
60 ZNF343 1 74.0 Weakly correlated
61 ZNF135 1 94.0 Moderately correlated
62 ZNF157 1 99.0 Highly correlated
63 ZNF175 1 94.0 Moderately correlated
64 ZNF182 1 99.0 Highly correlated
65 ZNF189 1 99.0 Highly correlated
66 ZNF202 1 160.0 Weakly correlated
67 ZNF251 1 94.0 Moderately correlated
68 ZNF30 1 94.0 Moderately correlated
69 ZNF337 1 43.0 Weakly correlated
70 ZNF33A 1 99.0 Highly correlated
71 ZNF33B 1 99.0 Highly correlated
72 ZNF605 1 99.0 Highly correlated
73 ZNF347 1 43.0 Weakly correlated
74 ZNF429 1 28.9 Weakly correlated
75 ZNF445 1 99.0 Highly correlated
76 ZNF483 1 99.0 Highly correlated
77 ZNF555 1 94.0 Moderately correlated
78 ZNF557 1 15.2 Weakly correlated
79 ZNF584 1 99.0 Highly correlated
80 ZNF585A 1 99.0 Highly correlated
81 ZNF585B 1 99.0 Highly correlated
82 ZNF587 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 ZNF2 8 99.0 Highly correlated
2 ZNF735 3 28.9 Weakly correlated
3 ZNF263 3 180.0 Weakly correlated
4 ZNF101 2 43.0 Weakly correlated
5 ZNF528 2 43.0 Weakly correlated
6 ZNF479 2 6.4 Weakly correlated
7 ZNF382 2 99.0 Highly correlated
8 ZNF18 2 160.0 Weakly correlated
9 ZNF287 2 99.0 Highly correlated
10 ZNF506 1 28.9 Weakly correlated
11 ZNF558 1 99.0 Highly correlated
12 ZNF317 1 99.0 Highly correlated
13 ZNF766 1 43.0 Weakly correlated
14 ZNF534 1 19.6 Weakly correlated
15 ZNF440 1 28.9 Weakly correlated
16 ZNF331 1 94.0 Moderately correlated
17 ZNF324 1 99.0 Highly correlated
18 ZNF320 1 28.9 Weakly correlated
19 ZNF610 1 28.9 Weakly correlated
20 ZIM3 1 87.0 Moderately correlated
21 ZNF189 1 99.0 Highly correlated
22 ZNF792 1 94.0 Moderately correlated
23 ZNF641 1 99.0 Highly correlated
24 ZNF585A 1 99.0 Highly correlated
25 ZNF347 1 43.0 Weakly correlated
26 ZNF257 1 0.0 Weakly correlated
27 ZKSCAN5 1 160.0 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 ZNF2 99.0 Highly correlated