ZRdb KZFP & Repeats
...

LTR_MER4E

  • Name
    MER4E
  • Repbase
    MER4E
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0000804
Description :

MER4E is similar to other MER4 LTRs, except for the first ~125 bp. Notethat MER stands for MEdium Reiteration frequency interspersed repeat. Assuch, MERs as a group are a grab bag of DNA transposons andretrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgaggactaagctctgatttttttatcttgcccaaattcctacctaaggggtctggggagtcatgccctacaaaccataaattctcatcagatgggttttatttgaccctgtatatcgtgacttactttccaatctgactctggcataacattagagacaaggaagaaaatcaaaatatttnaccccaaaatatatttccttgccataccttgaaattgccctgcaaagtctcttgtgggaaaaatccacattctatagagaatcccctttcccctttgttttccttnccttcctttccagatccaggagataatcaactaagagccaggcacccttttaagtccgataagaaacattttacaacctgctctctctgaagtctgctatctgagagcttcctctgcacaataaaacttggtctccacaatcctttatcttaacccgaacatttcctttctattgatcccaggtcttcagataaactcaaccaattgtcaaccagaaaatgtttaaatttacctatagcctggaagcccccgcttcgagttgtcccgcctttctgaaccaaaccaatgtatttcttaaatgtatttgattgatgtctcatgcctccctaaaatgtataaaaccaagctgcaccccgaccaccttgggcacatgttctcaggacctcctgagggctgtgtcacgggccatggtcactcatatttggctcagaataaatctcttcaaatattttacagagtttgactcttttcgtcgaca
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 24 43.0 Weakly correlated
2 ZNF558 19 99.0 Weakly correlated
3 ZNF534 18 19.6 Weakly correlated
4 ZNF382 16 99.0 Weakly correlated
5 ZNF2 15 99.0 Weakly correlated
6 ZNF679 10 28.9 Weakly correlated
7 ZNF680 9 28.9 Weakly correlated
8 ZFP37 7 99.0 Weakly correlated
9 ZNF705B 7 28.9 Weakly correlated
10 ZNF417 5 28.9 Weakly correlated
11 ZNF394 5 99.0 Weakly correlated
12 ZNF175 5 94.0 Weakly correlated
13 ZNF197 5 99.0 Weakly correlated
14 ZNF92 4 28.9 Weakly correlated
15 ZNF251 4 94.0 Weakly correlated
16 ZNF263 3 180.0 Weakly correlated
17 ZNF705D 3 28.9 Weakly correlated
18 ZNF584 3 99.0 Weakly correlated
19 ZNF486 3 8.6 Weakly correlated
20 ZNF589 3 28.9 Weakly correlated
21 ZNF610 3 28.9 Weakly correlated
22 ZNF101 3 43.0 Weakly correlated
23 ZKSCAN8 3 160.0 Weakly correlated
24 ZNF43 3 43.0 Weakly correlated
25 ZNF587 2 28.9 Weakly correlated
26 ZNF479 2 6.4 Weakly correlated
27 ZNF324 2 99.0 Weakly correlated
28 ZNF317 2 99.0 Weakly correlated
29 ZNF723 2 15.2 Weakly correlated
30 ZNF792 2 94.0 Weakly correlated
31 ZNF224 2 69.0 Moderately correlated
32 ZNF18 2 160.0 Weakly correlated
33 ZNF17 2 69.0 Moderately correlated
34 ZNF701 1 28.9 Weakly correlated
35 ZNF441 1 43.0 Weakly correlated
36 ZNF695 1 28.9 Weakly correlated
37 ZNF735 1 28.9 Weakly correlated
38 ZNF879 1 99.0 Weakly correlated
39 ZNF607 1 43.0 Weakly correlated
40 ZNF605 1 99.0 Weakly correlated
41 ZNF597 1 94.0 Weakly correlated
42 ZNF585B 1 99.0 Weakly correlated
43 ZNF554 1 99.0 Weakly correlated
44 ZNF549 1 87.0 Weakly correlated
45 ZNF436 1 180.0 Weakly correlated
46 ZNF334 1 99.0 Weakly correlated
47 ZNF284 1 43.0 Weakly correlated
48 ZNF274 1 99.0 Weakly correlated
49 ZNF26 1 99.0 Weakly correlated
50 ZNF257 1 0.0 Weakly correlated
51 ZNF250 1 99.0 Weakly correlated
52 ZNF182 1 99.0 Weakly correlated
53 ZIM3 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 ZNF534 14 19.6 Weakly correlated
2 ZNF558 6 99.0 Weakly correlated
3 ZNF766 3 43.0 Weakly correlated
4 ZNF175 3 94.0 Weakly correlated
5 ZNF589 2 28.9 Weakly correlated
6 ZNF197 2 99.0 Weakly correlated
7 ZNF584 1 99.0 Weakly correlated
8 ZNF417 1 28.9 Weakly correlated
9 ZNF479 1 6.4 Weakly correlated
10 ZNF605 1 99.0 Weakly correlated
11 ZNF182 1 99.0 Weakly correlated
12 ZNF679 1 28.9 Weakly correlated
13 ZNF705D 1 28.9 Weakly correlated
14 ZNF705B 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 ZNF534 19.6 Weakly correlated
2 ZNF558 99.0 Weakly correlated