ZRdb KZFP & Repeats
...

LTR_LTR78B

  • Name
    LTR78B
  • Repbase
    LTR78B
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000584
Description :

An ancient family (though not found in marsupials or playtupus).Possibly incomplete. Tough to reconstruct because of low complexityinterior.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtaacaggatgttgagtgggacttttcctgttgccccggaattggcggctaaagncccaaagctgaggacaangggcgctaagtaccccacattctaaagagaggtgccagacacatccctgcagggcttactaagaggcggccgaaccggccctgccaccaccgcccgcctctcgcccagtctatagaaggagagaaggaattggagagagatggcagggcagaggagaggggcagcggnggagagcctgnntttccctcccctccccatgggggagagagggggtgctccccctcccccaagccaagtgaggggggctccaagagaatcactcgtagagattgggggtgcctgcaagaaggggagactggcatctcattccccggttggacgtctgcttaggcagcggacttgctgatctgccctccgtgcctatctgagcgggggagaagggaactggagagagatggcagggcagagagagggggcagcggtggagcagcctgcactcccaccgtttggcgtggcaaggatgcgtgagtttcccgtgggtcaagtggacaccgcggaaggtagccgggcttgagccgtcttgccggtaccccgcccaagagggctgcccgccgggcgaggggaccccagcagcaagaggctgtggggtgnaccgccggnggcaggggctgaggaaggagtggaagaggtcgagccggagctggatctcccacgtcagggaactgtgcagtggggaggccccgcggggccccccgaagaactcacacatgcgccccacgagagagccagcatttggacgcctgccacacagagggcatcgacggccagtcggtgttagccagagaagcagcgacaaccaagagaggaccacaacagcaccagttaagtaagagacatctgtcccttttcctctcctccctccccgcccccaacaccggaggagctagacccggaaagagggggaggaggaggagtgaaagagcagaccacgccccttccccactccaggtccctcaggcccaggcctggccngngctgggggaggggaggagatgagctttaaatcggatatgagattgaagttttaaactggactaaactggactggactttttaataactgaaagtgaccggaaagctatggaatctgcccgagatgtcattaagggacgggaaagggagattcgacagagcacggttgaaggcagtgattggagaaaaataaaaccgtttcatgtttgtaccccaccgagttcagactgctcaataaaccggttacaca
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 ZNF263 60 180.0 Weakly correlated
2 ZNF382 60 99.0 Highly correlated
3 ZNF766 40 43.0 Weakly correlated
4 ZNF534 32 19.6 Weakly correlated
5 ZNF680 25 28.9 Weakly correlated
6 ZNF589 20 28.9 Weakly correlated
7 ZNF679 20 28.9 Weakly correlated
8 ZNF584 17 99.0 Highly correlated
9 ZNF394 17 99.0 Highly correlated
10 ZNF175 16 94.0 Moderately correlated
11 ZKSCAN1 15 160.0 Weakly correlated
12 ZNF479 15 6.4 Weakly correlated
13 ZNF28 14 28.9 Weakly correlated
14 ZNF705D 13 28.9 Weakly correlated
15 ZNF257 13 0.0 Weakly correlated
16 ZIM3 13 87.0 Moderately correlated
17 ZNF197 12 99.0 Highly correlated
18 ZNF705B 12 28.9 Weakly correlated
19 ZNF317 12 99.0 Highly correlated
20 ZNF597 11 94.0 Moderately correlated
21 ZNF723 9 15.2 Weakly correlated
22 ZNF75D 9 94.0 Moderately correlated
23 ZNF2 9 99.0 Highly correlated
24 ZFP69B 8 99.0 Highly correlated
25 ZKSCAN8 8 160.0 Weakly correlated
26 ZFP37 8 99.0 Highly correlated
27 ZNF793 7 99.0 Highly correlated
28 ZNF101 7 43.0 Weakly correlated
29 ZNF320 6 28.9 Weakly correlated
30 ZNF18 6 160.0 Weakly correlated
31 ZNF425 6 94.0 Moderately correlated
32 ZNF701 6 28.9 Weakly correlated
33 ZNF274 5 99.0 Highly correlated
34 ZNF334 5 99.0 Highly correlated
35 ZNF554 5 99.0 Highly correlated
36 ZNF528 5 43.0 Weakly correlated
37 ZNF251 4 94.0 Moderately correlated
38 ZNF549 3 87.0 Moderately correlated
39 ZKSCAN5 3 160.0 Weakly correlated
40 ZNF485 3 94.0 Moderately correlated
41 ZNF133 3 99.0 Highly correlated
42 ZNF140 3 99.0 Highly correlated
43 ZNF735 3 28.9 Weakly correlated
44 ZNF324 3 99.0 Highly correlated
45 ZNF610 2 28.9 Weakly correlated
46 ZNF823 2 43.0 Weakly correlated
47 ZNF780A 2 43.0 Weakly correlated
48 ZNF93 2 8.6 Weakly correlated
49 ZNF12 2 99.0 Highly correlated
50 ZNF547 2 74.0 Weakly correlated
51 ZNF519 2 19.6 Weakly correlated
52 ZNF506 2 28.9 Weakly correlated
53 ZNF141 2 43.0 Weakly correlated
54 ZNF441 2 43.0 Weakly correlated
55 ZNF44 2 43.0 Weakly correlated
56 ZNF224 2 69.0 Weakly correlated
57 ZNF26 2 99.0 Highly correlated
58 ZNF429 1 28.9 Weakly correlated
59 ZNF433 1 43.0 Weakly correlated
60 ZNF33A 1 99.0 Highly correlated
61 ZNF75A 1 94.0 Moderately correlated
62 ZNF761 1 19.6 Weakly correlated
63 ZNF778 1 74.0 Weakly correlated
64 ZNF182 1 99.0 Highly correlated
65 ZNF17 1 69.0 Weakly correlated
66 ZNF845 1 28.9 Weakly correlated
67 ZNF8 1 99.0 Highly correlated
68 ZNF92 1 28.9 Weakly correlated
69 ZNF716 1 19.6 Weakly correlated
70 ZNF707 1 74.0 Weakly correlated
71 ZNF695 1 28.9 Weakly correlated
72 ZNF684 1 99.0 Highly correlated
73 ZNF468 1 28.9 Weakly correlated
74 ZNF483 1 99.0 Highly correlated
75 ZNF66 1 0.0 Weakly correlated
76 ZNF486 1 8.6 Weakly correlated
77 ZNF599 1 99.0 Highly correlated
78 ZNF490 1 43.0 Weakly correlated
79 ZNF573 1 94.0 Moderately correlated
80 ZNF565 1 99.0 Highly correlated
81 ZNF563 1 28.9 Weakly correlated
82 ZNF558 1 99.0 Highly 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 ZNF263 20 180.0 Weakly correlated
2 ZNF534 18 19.6 Weakly correlated
3 ZNF680 8 28.9 Weakly correlated
4 ZNF479 5 6.4 Weakly correlated
5 ZIM3 4 87.0 Moderately correlated
6 ZNF257 4 0.0 Weakly correlated
7 ZNF485 3 94.0 Moderately correlated
8 ZNF75D 3 94.0 Moderately correlated
9 ZNF28 3 28.9 Weakly correlated
10 ZNF382 3 99.0 Highly correlated
11 ZNF597 3 94.0 Moderately correlated
12 ZKSCAN5 3 160.0 Weakly correlated
13 ZNF101 2 43.0 Weakly correlated
14 ZNF793 2 99.0 Highly correlated
15 ZNF549 2 87.0 Moderately correlated
16 ZNF506 2 28.9 Weakly correlated
17 ZNF766 2 43.0 Weakly correlated
18 ZNF723 2 15.2 Weakly correlated
19 ZNF44 2 43.0 Weakly correlated
20 ZNF320 2 28.9 Weakly correlated
21 ZNF324 2 99.0 Highly correlated
22 ZNF317 2 99.0 Highly correlated
23 ZNF610 1 28.9 Weakly correlated
24 ZKSCAN1 1 160.0 Weakly correlated
25 ZNF589 1 28.9 Weakly correlated
26 ZNF490 1 43.0 Weakly correlated
27 ZKSCAN8 1 160.0 Weakly correlated
28 ZNF433 1 43.0 Weakly correlated
29 ZNF823 1 43.0 Weakly correlated
30 ZFP37 1 99.0 Highly correlated
31 ZNF584 1 99.0 Highly correlated
32 ZNF573 1 94.0 Moderately correlated
33 ZNF695 1 28.9 Weakly correlated
34 ZNF735 1 28.9 Weakly correlated
35 ZNF140 1 99.0 Highly correlated
36 ZNF684 1 99.0 Highly correlated
37 ZNF141 1 43.0 Weakly correlated
38 ZNF707 1 74.0 Weakly correlated
39 ZNF679 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 ZNF263 180.0 Weakly correlated
2 ZNF680 28.9 Weakly correlated