ZRdb KZFP & Repeats
...

LTR_LTR19B

  • Name
    LTR19B
  • Repbase
    LTR19B
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000432
Description :

LTR19 elements are flanked by 5 bp target site duplication.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgacagagcaggagcaccgtcatctcggacaaacaccgccactttaagttccagctccctttctagcctcatgcatttcaaggaaatcacttctcttctaactacaagcagccagaaagagcagacagtaaaacacagataagacagctcgggcacagagggaggtggggggaaagtctcttgggtaactgccaaacttcaccctcatacaatgggccccagtaaaacagtgggccttaataagcacattcctttcccttcaggtgcactaagatagggaagctaaaagcagactcggggnnncgncggggggtatgcctgcagctgcagaaagatgtatgggaacagacacacaactctccctcccagataagcacaacaaagagacacagaagcagtccaagcctctgataaactctcccaccctgaatccttaaaaactcttagtctgtaagagagtgtgcctctgacctaactcggccagaagcccctctcaggtttgttttctctaaaataaacctgtctttgncgactgtcgagccacctttcgtgtttctttcctctttctttaattcttaca
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 ZNF766 75 43.0 Highly correlated
2 ZNF382 42 99.0 Weakly correlated
3 ZKSCAN8 39 160.0 Weakly correlated
4 ZNF589 39 28.9 Moderately correlated
5 ZNF92 34 28.9 Moderately correlated
6 ZNF175 32 94.0 Weakly correlated
7 ZNF850 30 28.9 Moderately correlated
8 ZNF584 30 99.0 Weakly correlated
9 ZNF197 30 99.0 Weakly correlated
10 ZKSCAN1 25 160.0 Weakly correlated
11 ZNF263 18 180.0 Weakly correlated
12 ZNF274 17 99.0 Weakly correlated
13 ZNF18 11 160.0 Weakly correlated
14 ZNF547 10 74.0 Weakly correlated
15 ZNF479 10 6.4 Weakly correlated
16 ZFP37 9 99.0 Weakly correlated
17 ZNF324 8 99.0 Weakly correlated
18 ZFP69B 8 99.0 Weakly correlated
19 ZNF2 7 99.0 Weakly correlated
20 ZNF705D 7 28.9 Moderately correlated
21 ZNF610 7 28.9 Moderately correlated
22 ZNF558 5 99.0 Weakly correlated
23 ZNF317 4 99.0 Weakly correlated
24 ZNF680 4 28.9 Moderately correlated
25 ZNF101 4 43.0 Highly correlated
26 ZNF394 3 99.0 Weakly correlated
27 ZNF485 3 94.0 Weakly correlated
28 ZFP28 2 99.0 Weakly correlated
29 ZIM3 2 87.0 Weakly correlated
30 ZNF705B 2 28.9 Moderately correlated
31 ZNF674 2 99.0 Weakly correlated
32 ZNF354A 2 99.0 Weakly correlated
33 ZNF534 2 19.6 Weakly correlated
34 ZNF528 2 43.0 Highly correlated
35 ZNF554 2 99.0 Weakly correlated
36 ZNF486 1 8.6 Weakly correlated
37 ZNF8 1 99.0 Weakly correlated
38 ZNF418 1 43.0 Highly correlated
39 ZNF84 1 99.0 Weakly correlated
40 ZNF778 1 74.0 Weakly correlated
41 ZNF441 1 43.0 Highly correlated
42 ZNF75D 1 94.0 Weakly correlated
43 ZNF75A 1 94.0 Weakly correlated
44 ZNF723 1 15.2 Weakly correlated
45 ZNF273 1 28.9 Moderately correlated
46 ZNF701 1 28.9 Moderately correlated
47 ZNF519 1 19.6 Weakly correlated
48 ZNF679 1 28.9 Moderately correlated
49 ZNF597 1 94.0 Weakly correlated
50 ZNF17 1 69.0 Weakly correlated
51 ZNF133 1 99.0 Weakly correlated
52 ZNF573 1 94.0 Weakly correlated
53 ZNF549 1 87.0 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 ZNF850 24 28.9 Moderately correlated
2 ZNF589 19 28.9 Moderately correlated
3 ZNF197 16 99.0 Weakly correlated
4 ZNF584 15 99.0 Weakly correlated
5 ZNF766 14 43.0 Highly correlated
6 ZNF175 14 94.0 Weakly correlated
7 ZNF479 9 6.4 Weakly correlated
8 ZNF382 3 99.0 Weakly correlated
9 ZNF263 3 180.0 Weakly correlated
10 ZNF485 3 94.0 Weakly correlated
11 ZKSCAN8 2 160.0 Weakly correlated
12 ZNF534 2 19.6 Weakly correlated
13 ZNF324 2 99.0 Weakly correlated
14 ZNF92 1 28.9 Moderately correlated
15 ZNF723 1 15.2 Weakly correlated
16 ZNF573 1 94.0 Weakly correlated
17 ZNF2 1 99.0 Weakly correlated
18 ZNF549 1 87.0 Weakly correlated
19 ZNF610 1 28.9 Moderately correlated
20 ZNF84 1 99.0 Weakly correlated
21 ZNF558 1 99.0 Weakly correlated
22 ZNF674 1 99.0 Weakly correlated
23 ZNF528 1 43.0 Highly correlated
24 ZNF317 1 99.0 Weakly correlated
25 ZIM3 1 87.0 Weakly correlated
26 ZNF597 1 94.0 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 ZNF175 94.0 Weakly correlated
2 ZNF197 99.0 Weakly correlated
3 ZNF584 99.0 Weakly correlated
4 ZNF589 28.9 Moderately correlated
5 ZNF766 43.0 Highly correlated
6 ZNF850 28.9 Moderately correlated