ZRdb KZFP & Repeats
...

LTR_MER50B

  • Name
    MER50B
  • Repbase
    MER50B
  • Type
    LTR
  • Emergence
    43.0 Mya
  • Dfam Id
    DF0000814
Description :

Note that MER stands for MEdium Reiteration frequency interspersedrepeat. As such, 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. :
tgttacaggtagttaggcatgagcggggcaggagagggctctccccccacccactaggaatgtcgggtgatggttcggcaattatcgcattgcctctctaaaagtgataanttggcagccggcgccagggagaggccatttcctgatggtccacacctgttaacattaaagtgttaattgaatgcaggcgccagggagaagcaacttcctgggcatgcgcgttaagagacaaaaatggcgaagtatgaccttccgggggcactcnncaccggaaaagggaagaaagcctcagatgggcatgcgtacaacttcctaaacacactgcgcgtgctcacttcccaagggtaaggagggcactgcgcatgcgggcagcccaccctaagggaagaatcatgggaaagaggcgagcctataaangtcctaggatcaaggttaaacgcggcacttnttcttctctctttgaccttcaggtgcccgcttgggtctcttccaagcgtactttcctttctttcctgttctaaagcctttttaaataaacttccactcctgctctgaaacttgcctcggtctctttttctgccttatgcccctcagtcgaattctttcttctgaggaggcaagaactgaagttgctgcagacccgtacggattcgccgccggtaactcggggtaactcggatctcttccaccggtaaca
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 15 43.0 Highly correlated
2 ZNF534 14 19.6 Weakly correlated
3 ZNF263 11 180.0 Weakly correlated
4 ZNF479 10 6.4 Weakly correlated
5 ZNF793 9 99.0 Weakly correlated
6 ZNF75D 9 94.0 Weakly correlated
7 ZFP57 7 87.0 Weakly correlated
8 ZNF680 7 28.9 Moderately correlated
9 ZNF382 7 99.0 Weakly correlated
10 ZNF808 5 19.6 Weakly correlated
11 ZNF394 5 99.0 Weakly correlated
12 ZNF251 4 94.0 Weakly correlated
13 ZNF679 4 28.9 Moderately correlated
14 ZNF197 3 99.0 Weakly correlated
15 ZNF528 3 43.0 Highly correlated
16 ZNF175 3 94.0 Weakly correlated
17 ZNF317 3 99.0 Weakly correlated
18 ZNF324 3 99.0 Weakly correlated
19 ZNF589 3 28.9 Moderately correlated
20 ZNF429 3 28.9 Moderately correlated
21 ZFP69B 3 99.0 Weakly correlated
22 ZNF584 2 99.0 Weakly correlated
23 ZKSCAN8 2 160.0 Weakly correlated
24 ZNF700 2 28.9 Moderately correlated
25 ZNF133 2 99.0 Weakly correlated
26 ZNF735 2 28.9 Moderately correlated
27 ZNF425 2 94.0 Weakly correlated
28 ZNF141 2 43.0 Highly correlated
29 ZNF616 2 43.0 Highly correlated
30 ZNF28 2 28.9 Moderately correlated
31 ZNF274 2 99.0 Weakly correlated
32 ZNF257 2 0.0 Weakly correlated
33 ZNF674 1 99.0 Weakly correlated
34 ZNF611 1 19.6 Weakly correlated
35 ZNF677 1 99.0 Weakly correlated
36 ZNF101 1 43.0 Highly correlated
37 ZNF705B 1 28.9 Moderately correlated
38 ZNF705D 1 28.9 Moderately correlated
39 ZIM3 1 87.0 Weakly correlated
40 ZNF777 1 319.0 Weakly correlated
41 ZNF780A 1 43.0 Highly correlated
42 ZFP37 1 99.0 Weakly correlated
43 PRDM9 1 0.0 Weakly correlated
44 ZNF490 1 43.0 Highly correlated
45 ZNF182 1 99.0 Weakly correlated
46 ZNF334 1 99.0 Weakly correlated
47 ZNF337 1 43.0 Highly correlated
48 ZNF33B 1 99.0 Weakly correlated
49 ZNF140 1 99.0 Weakly correlated
50 ZNF441 1 43.0 Highly correlated
51 ZNF471 1 94.0 Weakly correlated
52 ZNF486 1 8.6 Weakly correlated
53 ZNF607 1 43.0 Highly correlated
54 ZNF519 1 19.6 Weakly correlated
55 ZNF17 1 69.0 Weakly correlated
56 ZNF549 1 87.0 Weakly correlated
57 ZNF554 1 99.0 Weakly correlated
58 ZNF558 1 99.0 Weakly correlated
59 ZNF585B 1 99.0 Weakly correlated
60 ZNF597 1 94.0 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 ZNF479 10 6.4 Weakly correlated
2 ZNF534 10 19.6 Weakly correlated
3 ZNF75D 5 94.0 Weakly correlated
4 ZNF793 5 99.0 Weakly correlated
5 ZNF263 4 180.0 Weakly correlated
6 ZNF766 4 43.0 Highly correlated
7 ZNF141 2 43.0 Highly correlated
8 ZNF429 2 28.9 Moderately correlated
9 ZNF680 1 28.9 Moderately correlated
10 ZNF257 1 0.0 Weakly correlated
11 ZNF597 1 94.0 Weakly correlated
12 ZNF317 1 99.0 Weakly correlated
13 ZNF17 1 69.0 Weakly correlated
14 ZNF735 1 28.9 Moderately correlated
15 ZNF549 1 87.0 Weakly correlated
16 PRDM9 1 0.0 Weakly correlated
17 ZNF528 1 43.0 Highly correlated
18 ZNF33B 1 99.0 Weakly correlated
19 ZNF607 1 43.0 Highly correlated
20 ZFP57 1 87.0 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