ZRdb KZFP & Repeats
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LTR_MAMGYPLTR2C

  • Name
    MAMGYPLTR2C
  • Repbase
    MamGypLTR2c
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000981
Description :

MamGypLTR2c has 4bp TSDs. The 5' end has not been fully reconstructed,however that end is extended ~140bp farther than the similarlyincomplete MamGypLTR2b.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
attttgagagaaaangnntnttttngaattccaaaagcttggctttgaatatcaagagccaaagcctggaggactcagagcatagagtttatgccataaaccatagagtgggaagaatgcatgatgacgtaagagcagttttcccacccaaaaggagataaaagttcgaccagctggngggaggaggagantcggagagggcgngactagagcttagatgctggtgggtccctgagaaggggcccngcgccctgcccactccctgggccgagtcccgggcggggnggcgggacgatagaaaccccagatgagtttggggggatcccagagcagaagggacctgtgcctcgcttcccagggtgtagcccgggagactgcaagcctcntagagaagccctgcatccaacatggcgcctgagcggtagagtagcaatggctgagggaggtgtctaggcggatgggcctgagggcagcctcacagagtcctgcgcaccccagcgtggtgcggggagagcagccgagagttcctgagccccccaagaggggcgtgagaagtgggctgagagagccgaggcagacagtagcagaggccttgcagccagggaccaggtgggacagaggagngnctacatgcctgggaggacctggcgaccggaggccangnaggggaccgcggacgcagcagggaccggagncgatgcccaggaccaggcgggacgagntacacctcagcggaggccagcgaggacagaggacggcacgcggaccagacgcccctccccgatgccaggacgacaaggccactgagcccccccggaacccagatcacccccggggagaagggaaggagggggaaggagagaatcctgaattgactgagtatttacccaaaagagactgagttttaaaccggaagtgactgagttaccttgaattggcaagattaagttttccgccatcagcggaaatgggggctcgagagctaagttgagttcagttatagagaaataaagaaagttacatttttgcacacctgagtttgtgactgtaaaattcatacccgctaca
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 23 99.0 Highly correlated
2 ZNF680 22 28.9 Weakly correlated
3 ZNF766 16 43.0 Weakly correlated
4 ZNF589 12 28.9 Weakly correlated
5 ZIM3 9 87.0 Moderately correlated
6 ZNF584 9 99.0 Highly correlated
7 ZNF534 9 19.6 Weakly correlated
8 ZNF394 9 99.0 Highly correlated
9 ZNF263 9 180.0 Weakly correlated
10 ZNF175 8 94.0 Moderately correlated
11 ZNF197 8 99.0 Highly correlated
12 ZNF479 7 6.4 Weakly correlated
13 ZNF679 6 28.9 Weakly correlated
14 ZNF18 6 160.0 Weakly correlated
15 ZFP69B 5 99.0 Highly correlated
16 ZNF705B 5 28.9 Weakly correlated
17 ZFP37 5 99.0 Highly correlated
18 ZKSCAN1 5 160.0 Weakly correlated
19 ZNF257 4 0.0 Weakly correlated
20 ZNF274 4 99.0 Highly correlated
21 ZNF701 4 28.9 Weakly correlated
22 ZNF2 3 99.0 Highly correlated
23 ZNF317 3 99.0 Highly correlated
24 ZNF320 3 28.9 Weakly correlated
25 ZNF324 3 99.0 Highly correlated
26 ZNF723 3 15.2 Weakly correlated
27 ZNF705D 3 28.9 Weakly correlated
28 ZKSCAN8 3 160.0 Weakly correlated
29 ZNF597 3 94.0 Moderately correlated
30 ZNF92 2 28.9 Weakly correlated
31 ZNF133 2 99.0 Highly correlated
32 ZNF429 2 28.9 Weakly correlated
33 ZNF17 2 69.0 Weakly correlated
34 ZNF510 1 99.0 Highly correlated
35 ZNF251 1 94.0 Moderately correlated
36 ZNF808 1 19.6 Weakly correlated
37 ZNF793 1 99.0 Highly correlated
38 ZNF792 1 94.0 Moderately correlated
39 ZNF780A 1 43.0 Weakly correlated
40 ZNF248 1 99.0 Highly correlated
41 ZNF490 1 43.0 Weakly correlated
42 ZNF573 1 94.0 Moderately correlated
43 ZNF554 1 99.0 Highly correlated
44 ZNF558 1 99.0 Highly correlated
45 ZNF610 1 28.9 Weakly correlated
46 ZNF563 1 28.9 Weakly correlated
47 ZNF141 1 43.0 Weakly correlated
48 ZNF169 1 94.0 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 ZNF534 6 19.6 Weakly correlated
2 ZIM3 3 87.0 Moderately correlated
3 ZNF680 3 28.9 Weakly correlated
4 ZNF263 3 180.0 Weakly correlated
5 ZNF679 2 28.9 Weakly correlated
6 ZNF589 2 28.9 Weakly correlated
7 ZNF197 2 99.0 Highly correlated
8 ZNF479 2 6.4 Weakly correlated
9 ZNF780A 1 43.0 Weakly correlated
10 ZFP37 1 99.0 Highly correlated
11 ZNF257 1 0.0 Weakly correlated
12 ZNF382 1 99.0 Highly correlated
13 ZNF597 1 94.0 Moderately correlated
14 ZNF723 1 15.2 Weakly correlated
15 ZNF563 1 28.9 Weakly correlated
16 ZNF705D 1 28.9 Weakly correlated
17 ZNF584 1 99.0 Highly correlated
18 ZNF320 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