ZRdb KZFP & Repeats
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LTR_MAMREP1527

  • Name
    MAMREP1527
  • Repbase
    MamRep1527
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000987
Description :

Possibly an LTR. TG...CA. There is a hint of 5 bp TSDs, and polyA signal(consensus was inverted from original for this). As yet, no convincinghomology to any other transposable element.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtagtagtccgcaaggcctgtttcaaatgcttagcacacacacacacacacacaagcttggcatttgccattntaaacgcctaggatggcacgtccaccctgccctttgccctagtaagtgggcctttgtaaccagggaaatggccctggttctcagtccaaagagatattggggagatgtctcagcaaaagataaagaacagggatgtattgttcccccgaaatccttctgttctttggatatcttaactccctgcttcccatgcccgcttgtgacgccaaccaatgttgcaatggcagcagccaatcccagactttccctgctgcctgaagtccagccaatagctgacttcaccaccccctccttgcttgctagcgattggaggagcaattgtatcacatgcttggactgaccaatgaataagtggccaggggccattttgagtggcagccttccagttctgcagaaactataaaactgacccaaacaaagaaactgttggagtcgccggggtcagggactatagatccgtatgtcacctcaccatcagagcaccagcctctgagttccctttcttggctgcactccgggggccggatgccggaccnncgacgactgtgcagcaatggcaagaagagaggggtgctcggcgagaccctgacagtctgccgaggccaccacaagctgggaccctatctttgctgacgcgtatagtattcctgttgtaacaagtgtccttttggttaaaagtaataaatctcctcttgtttaagtgacaggtggttgggattgttacttttgctttcggcaaacccataagaggaaaagtnaacccacatggtctggaggggagggaataggtcaaatactaagatcnggacctaatcccttagcagccgggcaggagttaggagaggaggcccgtgcttttgaatagagacccctctaggggccacgaacggacaca
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. :
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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 ZNF382 27 99.0 Highly correlated
2 ZNF766 26 43.0 Weakly correlated
3 ZNF263 15 180.0 Weakly correlated
4 ZNF680 14 28.9 Weakly correlated
5 ZNF534 10 19.6 Weakly correlated
6 ZNF584 10 99.0 Highly correlated
7 ZNF589 9 28.9 Weakly correlated
8 ZNF317 8 99.0 Highly correlated
9 ZFP37 7 99.0 Highly correlated
10 ZNF679 7 28.9 Weakly correlated
11 ZNF197 7 99.0 Highly correlated
12 ZNF175 7 94.0 Moderately correlated
13 ZNF793 6 99.0 Highly correlated
14 ZNF394 6 99.0 Highly correlated
15 ZKSCAN8 6 160.0 Weakly correlated
16 ZNF705D 5 28.9 Weakly correlated
17 ZNF331 4 94.0 Moderately correlated
18 ZNF554 4 99.0 Highly correlated
19 ZNF485 4 94.0 Moderately correlated
20 ZNF558 4 99.0 Highly correlated
21 ZIM3 4 87.0 Moderately correlated
22 ZKSCAN1 4 160.0 Weakly correlated
23 ZNF2 4 99.0 Highly correlated
24 ZNF528 3 43.0 Weakly correlated
25 ZNF320 3 28.9 Weakly correlated
26 ZNF597 3 94.0 Moderately correlated
27 ZNF133 3 99.0 Highly correlated
28 ZFP28 3 99.0 Highly correlated
29 ZNF723 3 15.2 Weakly correlated
30 ZNF610 2 28.9 Weakly correlated
31 ZNF92 2 28.9 Weakly correlated
32 ZNF778 2 74.0 Weakly correlated
33 ZNF75D 2 94.0 Moderately correlated
34 ZNF519 2 19.6 Weakly correlated
35 ZFP69B 2 99.0 Highly correlated
36 ZNF18 2 160.0 Weakly correlated
37 ZNF274 2 99.0 Highly correlated
38 ZNF324 2 99.0 Highly correlated
39 ZNF441 1 43.0 Weakly correlated
40 ZNF429 1 28.9 Weakly correlated
41 ZNF334 1 99.0 Highly correlated
42 ZNF461 1 99.0 Highly correlated
43 ZNF30 1 94.0 Moderately correlated
44 ZNF705B 1 28.9 Weakly correlated
45 ZNF563 1 28.9 Weakly correlated
46 ZNF257 1 0.0 Weakly correlated
47 ZNF230 1 28.9 Weakly correlated
48 ZNF480 1 43.0 Weakly correlated
49 ZNF17 1 69.0 Weakly correlated
50 ZNF786 1 99.0 Highly correlated
51 ZNF141 1 43.0 Weakly correlated
52 ZNF879 1 99.0 Highly correlated
53 ZNF549 1 87.0 Moderately 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 ZNF793 4 99.0 Highly correlated
2 ZNF534 3 19.6 Weakly correlated
3 ZNF263 3 180.0 Weakly correlated
4 ZNF680 2 28.9 Weakly correlated
5 ZNF197 1 99.0 Highly correlated
6 ZNF549 1 87.0 Moderately correlated
7 ZNF766 1 43.0 Weakly correlated
8 ZNF382 1 99.0 Highly correlated
9 ZNF331 1 94.0 Moderately correlated
10 ZNF320 1 28.9 Weakly correlated
11 ZNF879 1 99.0 Highly correlated
12 ZNF257 1 0.0 Weakly correlated
13 ZIM3 1 87.0 Moderately correlated
14 ZNF778 1 74.0 Weakly correlated
15 ZNF133 1 99.0 Highly correlated
16 ZNF584 1 99.0 Highly correlated
17 ZNF597 1 94.0 Moderately correlated
18 ZNF18 1 160.0 Weakly correlated
19 ZNF317 1 99.0 Highly 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