ZRdb KZFP & Repeats
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LTR_MER84-INT

  • Name
    MER84-INT
  • Repbase
    MER84I
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0000943
Description :

Associated with MER84 LTRs. This is related to HERV4_I. Note that MERstands for MEdium Reiteration frequency interspersed repeat. As such,MERs as a group are a grab bag of DNA transposons and retrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tcttggtggcccgtacggggactttactgggatttctcccttcttttttctcctgcttccctcgacggtctggttctttactcttgggaactganggtccctggccgaggccactcttcggtgggatcctgaagccctagagaagggatacctgtctgtcgttgcccttaggggtgagggactggccagggttcttttctgttttcggactgccagtgaaccagcttgagtactctttggcaattgagggtttctggccgagggccactccccggtgttacccgaaggccaagacaaaagagcgaattcgctattgcccgtcagggtggcaagtccactttcactttaacactctgtaaaccgtgccttggaaacgagcagcagcgatctcaactctgcgcagacacactctactggttgcggacccaattttggattcaacttcgtcacaggcaccgcatcccaagttacgggtgagttctccttcacattaggtttgagctgaccactcaaacaagggcacgcctggactggtcatccaggcaagggcaggccctctatccgtggtgggacgcccccgaatagagtgagccaaagggaaaagggaggtccaaatccctcagggacgcctcagggatcttgtagtcccttatcnaaacccaacatgggttcaattcattcttcaattcnntccgactcgcccttgggttgcattcttaaaaattggtcccattttgacccacaaactctcaaaaagaagcgtataattttcttttgtaatacagcttgggttcaatataagctccccaataanttaaattggcctcttaatgggaccctggattggaatattattttacaactagactcattttgccggaacctcggaaaggattcagaggtcccatatgttcaggtctttttggctttatcccaaaacccaaaattacataaaaattgtcgcgtatgcttccaaggaacttcctccctccccgattctgatgtcttagatgatccttccttttgcctatcacactctcctcagcctgctcccgcttcacctacaccctctccatctgctccatcccccaatcaaccccccccatatccagatactttatccccctcacatactcgcacgggagtcacatatgccactagtacagagtcctcagaaaatcccaaaaatgttttgcctctccgcgaggtggcaaatggagatttgggaacaattcgagttcatgtcccttttccaatgtctgatctttcgcaaattcaatccaagttgggttcatttagccaggatccctctaagttcattcaagaatttcgggctttaactattgcctttgatttaacctggcaagacatattcgtggtattaactacttgctgttcccacgaagaaaaatcacgcatatggtctttagctcgagcttgggcagatgaagctcatgctcgtaatcctaatgataatagagccggggcagaagctgtccccgacacagaacccaattggcaataccaggccgccgatgccggcccaaacagaggcaggggcagacgagattatatgataacttgcttgttggaaggaatgaaaaaggctgtaataaaacctgttaatttttctaaattacgagaaatcactcaggagccatctgagaaccccgcccttttccaagctagactggtggaggccatgcataaatatacaaatttagaccccgaaagccctgagggccaatccattctggccgtacattttataagtcaggcttccccagacatcagacaaaaactccaaaaattagagcaaggcccacaaactccctttcctactttattaaatacagcctttaaggttttcagtaaccgggaggaaacatcaaaaataaaaaaggctcaattggaggaggaaaaatgccgtcgccaagctaattacatggcgacagcattggcacattctttttcgttagctaataaccccaaggctcgtccctataatactaacagaacgggggcctgtcatcgctgcagaaatccaggacactggagtagagaatgtcccaaacctccgggttacaagccgcccccgggaccctgtcctcattgcaaacaagagggtcattggaagagcgagtgtccctctctccctcatgaggggggggcacctcttccttctgggctgtcacagccacaacctcgccaacctacccgacaagggggtcctgcagaacgaggacgagggcaagggcaaggacaagcacctctaactctattcctggattatgatcaagcctctgaaagtcatcctctagatgactgatggggccttgaggccatccaggcccctgtcttttccatctctatggatgagcctcgggtaaatctgattgcggctgaacaagagataatgttcctcatagatacagggttcagctttaaacgtttattacggcccaatgtgccagtcctccattttcctcacgggtattgatggaaaaccccaacgaggctgtttcacaccgccactcccttgtaaaatggaaggctattcctttacccactccttttagtcctgccaagctgccctgttccattattaggtcatgacttactcacaaaattacaagctaatttacagctaaggcctcaccttctagctgtattaactcacacttcaccaaaagagccgctgcagtctatagaacctcacattctaaaacaagtgccatttgaggtttggaatacttctattcctggccgttcaatnatcagctgctcccgtcatcattcagcttaaaaatcccaataagttccccagaaccccccaataccccttgaaaccagaagcacgaaaagggttaaagcccctaataacaaaatttttaacccatggattattgcgcccatgcaactcgccttgcaacactcccattttagctgtaaagaaaccagatggctcctaccgactagtacaggaccttagaattattaatgaagctgttattcctattcatcctattgtcccaaacccttacgccctttttggacaaattccctccaccacagcttggtttactgtacttgatcttaaggatgcctttttctgcattcctgtacacccagatagccaatttttgtttgcttttgaatggcaagacccagatactcaaataactcaacagttaacttggacagttctgccccagggattcagagatagcccccacctttttggacaggccctagctaaagacctgtccaccctgcagcttctcccagatagcaatctactccagtatgtggatgacctactaatctgtagtcctaacaaggctgtttcagaccaaaatacagtattagtactaaacaaacttgctgattgtgggtacaaagtatctccttctaaggtacaaatatccacacaaagngttcaattttggggtcttattttaacccccggtacaaagagcctctctagcgctcgtaaagatcttatcttaaacgtgacaaccccagtaactaaacaacagcttcggtcctttttgggtatggccgggttttgcagaatatggattccttccttcggattaatagcaaaacctttatatgaagccctcaagggaactgaggaacaacctctatcctggactaatgatatgaagcatgctctaaacactttaaaacaggctttaatctcagccccggccttagccctancagatctgactaagcctttctttttgtatgtacacgaatgaaggggaatagctttgggagtcttagcccaagatctggggccctctaagcgccctatagcatatttttcaaaaactttagacctagtatcccagggatggccccccgcttaagagccttagcagcggtggccctcttagtccaagaaagcctcaaactatattacccgcccctcctgggctcttatggctttgcggcactgctaataattatttaaacccttttcaagctttggccctatcccaccttgataattctcttcattatggtgattgtactctgggaacaatagctcccacccaaatcactgtcttgaacataacttccaatccagaattccattctagaagaaaaagggccctaggacttattgtggccggagttgtgggaactatcgcaactctcgccccttggggaggttttacttaccatgaaatcacactacgagaacttaccgcctcccttgaaatagccttagcaaaaactggcgcaagtctatcggcgctagaaaagtctttagactcactagcaggaatggtttttgataatagacgagctctggattacctcctagctgaacaaggaggagtctgtgctgtcatcaacaaaacctgttgcacctacattaatgtgtctggagaagtggaaactaatgtccaagaaattttcaaacaagccaaatggctacacacactttcccaaagtaaccaagactgggccaaaacctttactgattggtttccaaaaatcacttggcttctcccattccttggacctttattcctcgtcattcttcttttaatatttggtccctgcctttttaatgctctcattaagtttatatcttccagattacaacgattccacctacagatgactatgcaatcccaataccggcctgcaacagcaacttccatttacatggggcctcttgatggaatccggtcttcccccatgaacgagtttttcatgacccttcattcccttcatgacagagagcaagaaagggaaaaacgcaacttatccccttcaacgccccctttcagcaggaagtagccagacagactcgacgcccctcttcactgtgccgttttccctttcttgagaccccaataggcagcaggtagacatgagcatgggggaatataaagggtcaaagatttgaccaagatatttgtcagggggaaaa
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 ZNF723 8 15.2 Weakly correlated
2 ZNF679 7 28.9 Weakly correlated
3 ZNF274 4 99.0 Weakly correlated
4 ZNF394 4 99.0 Weakly correlated
5 ZNF101 3 43.0 Weakly correlated
6 ZNF705B 3 28.9 Weakly correlated
7 ZNF479 3 6.4 Weakly correlated
8 ZNF317 3 99.0 Weakly correlated
9 ZNF558 2 99.0 Weakly correlated
10 ZNF766 2 43.0 Weakly correlated
11 ZNF140 2 99.0 Weakly correlated
12 ZNF534 2 19.6 Weakly correlated
13 ZNF263 2 180.0 Weakly correlated
14 ZNF28 2 28.9 Weakly correlated
15 ZNF382 2 99.0 Weakly correlated
16 ZNF471 1 94.0 Weakly correlated
17 ZNF485 1 94.0 Weakly correlated
18 ZNF554 1 99.0 Weakly correlated
19 ZNF2 1 99.0 Weakly correlated
20 ZNF202 1 160.0 Weakly correlated
21 ZNF680 1 28.9 Weakly correlated
22 ZNF700 1 28.9 Weakly correlated
23 ZNF701 1 28.9 Weakly correlated
24 ZNF705D 1 28.9 Weakly correlated
25 ZKSCAN1 1 160.0 Weakly correlated
26 ZNF347 1 43.0 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 ZNF723 7 15.2 Weakly correlated
2 ZNF140 2 99.0 Weakly correlated
3 ZNF479 2 6.4 Weakly correlated
4 ZNF534 2 19.6 Weakly correlated
5 ZNF101 1 43.0 Weakly correlated
6 ZNF485 1 94.0 Weakly correlated
7 ZNF701 1 28.9 Weakly correlated
8 ZNF2 1 99.0 Weakly correlated
9 ZNF28 1 28.9 Weakly correlated
10 ZNF471 1 94.0 Weakly correlated
11 ZNF202 1 160.0 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 ZNF723 15.2 Weakly correlated