ZRdb KZFP & Repeats
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LTR_LTR90A

  • Name
    LTR90A
  • Repbase
    LTR90A
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000619
Description :

A tough one. Possibly 5 bp TSDs, and thus an ERVL class element, buthard to confirm. Orientation unclear. Has an AATAAA site in bothorientations at reasonable positions. Chose this one, as the mostconserved region of the subfamilies overlaps this orientation'spotential poly A site.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgttagaaatttgatcggggatttcctgtgcagtctggagctgagaanaaggagatcatgacttgggctttgcagcccaaatatctttccttccccatcccccaaaatacacccaatcaaataaggttaggatgatggttaccaggcagcttgcaaaagcaagggcattccaccctccgaatttctggtcagaganagtanatatgtaaaacagaatatgctccattgttaagcaaacaccctntttattgatagtgggtcaacaagagcataggcaggtttagctatacagacaactaacagaatttgagatgcagaatattaaagctaagaatccaagatcaatcattcaaaatacaagtagatacgcagagaaaatatcacagcataagtagcagtnctaaaacgcaaagggctagagtcctgcnaaggcctttcctacgcagaagngccaaagcggagattcaggatcaacgctgttaaaatgcaaaatataatcaggagcaagcnctancgaatcctgcaaaggcctttcttaattaagcanttctganatacatncaactcctggttatagaaggnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnccaagggaaaagcggngagaaagcagagagaaagagnagccggaaaatnccagctccttaaaagctctaaacaaggggcggagactcgctcctccctggccaatccttgatggctccggagagggcgccctgattaatactttgttacgtcattaaaaggggtcagcttaaggtaaggtaatggagntcccatgacctattgaccttgttacgtcattagagaggccanctttggcccagaaaatggcggattccttccctgtgattcacacattacccagaagcctctggcttcctggaattcttaataaaaattccaaatctctcggcaataactttcaaacaccacaattttcgctaaca
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 31 99.0 Highly correlated
2 ZNF2 8 99.0 Highly correlated
3 ZNF394 7 99.0 Highly correlated
4 ZNF324 7 99.0 Highly correlated
5 ZFP69B 6 99.0 Highly correlated
6 ZNF8 5 99.0 Highly correlated
7 ZFP37 5 99.0 Highly correlated
8 ZNF766 5 43.0 Weakly correlated
9 ZNF263 4 180.0 Weakly correlated
10 ZNF175 4 94.0 Moderately correlated
11 ZNF701 4 28.9 Weakly correlated
12 ZNF320 3 28.9 Weakly correlated
13 ZNF101 3 43.0 Weakly correlated
14 ZNF680 3 28.9 Weakly correlated
15 ZIM3 2 87.0 Moderately correlated
16 ZKSCAN1 2 160.0 Weakly correlated
17 ZNF716 2 19.6 Weakly correlated
18 ZNF679 2 28.9 Weakly correlated
19 ZNF597 2 94.0 Moderately correlated
20 ZNF589 2 28.9 Weakly correlated
21 ZNF558 2 99.0 Highly correlated
22 ZNF554 2 99.0 Highly correlated
23 ZNF18 2 160.0 Weakly correlated
24 ZNF528 1 43.0 Weakly correlated
25 ZNF510 1 99.0 Highly correlated
26 ZNF490 1 43.0 Weakly correlated
27 ZNF707 1 74.0 Weakly correlated
28 ZNF723 1 15.2 Weakly correlated
29 ZNF197 1 99.0 Highly correlated
30 ZNF808 1 19.6 Weakly correlated
31 ZNF251 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 ZNF701 4 28.9 Weakly correlated
2 ZIM3 2 87.0 Moderately correlated
3 ZFP37 1 99.0 Highly correlated
4 ZNF554 1 99.0 Highly correlated
5 ZNF197 1 99.0 Highly correlated
6 ZNF680 1 28.9 Weakly correlated
7 ZNF679 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