ZRdb KZFP & Repeats
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LTR_LTR10G

  • Name
    LTR10G
  • Repbase
    LTR10G
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000398
Description :

Copies present at orthologous sites in rhesus and baboon, preciselyabsent from marmoset.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtaagatacaatgaatttctctgagtttctcttcaaaggtttagcctgttaacttccttgtcctttgttctcaaactcaactttcttgttcctccttgcccctagttactgtaaancagcctacccccttcccgtcagctctaatcaataactcacatctgttcccttggttacctgcacccattgttcccccgaaactgcacgtctcacacgctccaccactgtacctcacgtcccccttcccttccatatttagaaaaatatttacaagtagccaatcgggtcagctcagattgtgcggtccgaccccagcccatgggggagtgacacagaggtagggactncgcgttagggataaaaaccccctgctctcctttgttcnntgtgctcttgcgatcttgattgacgcgagcggcacccttctgcagaagtaaattgccttgctgagaaaacttttgcctgagtgctggtttcactttgcggcaccgagcatttattcctagagcatttttatatccaaca
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 ZNF562 22 28.9 Highly correlated
2 ZNF506 11 28.9 Highly correlated
3 ZFP57 11 87.0 Weakly correlated
4 ZNF382 9 99.0 Weakly correlated
5 ZNF561 8 43.0 Weakly correlated
6 ZNF766 7 43.0 Weakly correlated
7 ZNF160 3 74.0 Weakly correlated
8 ZNF263 3 180.0 Weakly correlated
9 ZNF680 2 28.9 Highly correlated
10 ZNF679 2 28.9 Highly correlated
11 ZNF18 2 160.0 Weakly correlated
12 ZNF257 2 0.0 Weakly correlated
13 ZNF589 2 28.9 Highly correlated
14 ZNF554 1 99.0 Weakly correlated
15 ZNF44 1 43.0 Weakly correlated
16 ZNF584 1 99.0 Weakly correlated
17 ZNF610 1 28.9 Highly correlated
18 ZNF793 1 99.0 Weakly correlated
19 ZNF8 1 99.0 Weakly correlated
20 ZNF547 1 74.0 Weakly correlated
21 ZNF534 1 19.6 Moderately correlated
22 ZNF468 1 28.9 Highly correlated
23 ZNF394 1 99.0 Weakly correlated
24 ZNF324 1 99.0 Weakly correlated
25 ZNF320 1 28.9 Highly correlated
26 ZNF28 1 28.9 Highly correlated
27 ZNF184 1 99.0 Weakly correlated
28 ZNF175 1 94.0 Weakly correlated
29 ZNF141 1 43.0 Weakly correlated
30 ZNF140 1 99.0 Weakly correlated
31 ZKSCAN1 1 160.0 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 ZNF562 22 28.9 Highly correlated
2 ZFP57 7 87.0 Weakly correlated
3 ZNF561 6 43.0 Weakly correlated
4 ZNF257 1 0.0 Weakly correlated
5 ZNF468 1 28.9 Highly correlated
6 ZNF263 1 180.0 Weakly correlated
7 ZNF382 1 99.0 Weakly correlated
8 ZNF320 1 28.9 Highly correlated
9 ZNF766 1 43.0 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
1 ZFP57 87.0 Weakly correlated
2 ZNF562 28.9 Highly correlated