ZRdb KZFP & Repeats
...

LTR_LTR18C

  • Name
    LTR18C
  • Repbase
    LTR18C
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000430
Description :

Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtaaggaacatggctgcgctgcagccaagcaggcatagggcagcaggcataggccgaggtaaacagcctggatgactcagcgggattggggcgcaggcgcacagtcccgtgccttatataatcacagccatgtagacataacatagagaagctcaccacctggctctcagccactattgtttgtgnggtgtataaatgtaacactgacnctgtgaaggagctgctgaataaagccatgtctcatctacctgctgtctctcgagtgttcttccagctccctgccccacgtccacccactcccctcggacctcagctggggctggaacctgaccctgagcatgaca
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 ZNF486 55 8.6 Weakly correlated
2 ZNF766 19 43.0 Highly correlated
3 ZNF382 14 99.0 Weakly correlated
4 ZNF584 13 99.0 Weakly correlated
5 ZNF175 13 94.0 Weakly correlated
6 ZNF589 11 28.9 Moderately correlated
7 ZKSCAN8 10 160.0 Weakly correlated
8 ZNF549 10 87.0 Weakly correlated
9 ZNF197 9 99.0 Weakly correlated
10 ZNF547 8 74.0 Weakly correlated
11 ZNF324 6 99.0 Weakly correlated
12 ZKSCAN1 4 160.0 Weakly correlated
13 ZIM3 4 87.0 Weakly correlated
14 ZNF554 4 99.0 Weakly correlated
15 ZNF528 3 43.0 Highly correlated
16 ZNF610 3 28.9 Moderately correlated
17 ZNF557 2 15.2 Weakly correlated
18 ZFP69B 2 99.0 Weakly correlated
19 ZNF506 2 28.9 Moderately correlated
20 ZNF679 2 28.9 Moderately correlated
21 ZNF680 2 28.9 Moderately correlated
22 ZNF479 2 6.4 Weakly correlated
23 ZFP57 2 87.0 Weakly correlated
24 ZNF320 2 28.9 Moderately correlated
25 ZNF317 2 99.0 Weakly correlated
26 ZNF264 2 99.0 Weakly correlated
27 ZNF792 1 94.0 Weakly correlated
28 ZNF440 1 28.9 Moderately correlated
29 ZNF705B 1 28.9 Moderately correlated
30 ZFP82 1 99.0 Weakly correlated
31 ZNF17 1 69.0 Weakly correlated
32 ZNF251 1 94.0 Weakly correlated
33 ZNF254 1 43.0 Highly correlated
34 ZNF263 1 180.0 Weakly correlated
35 ZNF28 1 28.9 Moderately correlated
36 ZNF2 1 99.0 Weakly correlated
37 ZNF534 1 19.6 Weakly correlated
38 ZNF347 1 43.0 Highly correlated
39 ZNF394 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 ZNF486 13 8.6 Weakly correlated
2 ZNF549 3 87.0 Weakly correlated
3 ZNF554 3 99.0 Weakly correlated
4 ZNF766 2 43.0 Highly correlated
5 ZIM3 1 87.0 Weakly correlated
6 ZKSCAN8 1 160.0 Weakly correlated
7 ZNF610 1 28.9 Moderately correlated
8 ZNF175 1 94.0 Weakly correlated
9 ZNF506 1 28.9 Moderately correlated
10 ZNF534 1 19.6 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 ZNF486 8.6 Weakly correlated