ZRdb KZFP & Repeats
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LTR_MER89-INT

  • Name
    MER89-INT
  • Repbase
    MER89I
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000948
Description :

Associated with MER89 LTRs. Note that MER stands for MEdium Reiterationfrequency interspersed repeat. As such, MERs as a group are a grab bagof DNA transposons and retrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
gttttcntggaggttccaccgagncnatacantctgcactgcccgtcgccgtggaccccagccttcgnccaggtgcgncgctacccacggagngcccctcttgtgccttgctgctcgcggcncgtngatcccgtgagtgccacacccgggtctgaactctgctctctttgcgttgagttcctncggctatttattctcagtttggtaccgggttttgttatcggttcccatttgtttggcatccttggtggaatcaggccattccttnnttcatcccnttttgctctccttttgtgctnctgttttgtgctgtctaaaagtgttgtttgtcataaggagaatcacngaggtagaacacannnnggccatgccctataagcctgtttgntctgagccggcctcacagaccggtgagtgtngttctcaccggaccggcgtccattcggncanntccgtttggacaaacgnntttgctgtgggtcaccaataaaactgngatgaggttctcctttcccatctttttttgtcctgagagcttggctttgatccagagagagcgttncttccggttttccgcctgccggggggcgcagattgtcgggtctgcgttcggaggcggccaaccgtcaggttgggggcccgagacacgaagtgcacaagcatnacttccgaccgaccgtcgccagctctcatggggtntctaagtctaaatcctctctcctncacaggaaaaactcctcttantacacgttcccnnattacaattctngntnttgcgcctactttcataacttnacttcagtnctaatctgcagtgncatttgnctgaacagaatngattcatttgagaggcgccttagaaaagaaagagaccnagtgggcagcattttttgattggtatgcagaggcctccaaacgaaattctgaattaaaaaattgcttcactaaaagattctttggccaaagctaatgagcaatttgacaaacttaagcagcaacaaactaatttccctagtaaatcctccccgctccttgtcctccattgcctccctatatccagntctcctcctccccttatccttctgatctctctccttccgcgcctccgtcgactcctccctcctcttccccttgtccagaccnnctnccttttcctaacgactccaaatggtccagttgcctctaaagatccatccctcccatgagccaggtacgcaggcaactgtagaatttaaaccttggacccgagctgaattaagagctataattaaagatttccctaaacccagacgagaccagcaaatattcatagaagaattagaattcctttgggtgcatatgacccagggttacctgacctatatcaacttgtacacatgttggtcggaacctcggatgctaaatcctngatggcaaaaggtgattggnctgacccggaaagggacctacangatccctctttccacaataaacctgagggtcaaaaaaaggcccaaaagtaggtcaaagtctcctaaaagccatacctgaaacgtttccaataaaaatcgattgatcgtaattcaatcacgcaaacaaacaaannaacaaaanacgcaactatcagagattttcaggatagncgaaaacaccatctacaacattngggagttaaagaagttcancctgnnantagagacctaattcgaaaacagaaattagaatgggaaaatcgccctttacctgaactacaacacctggcagaacattttgaaagggctttagaacaaaaacgagacaggacccaaaataaacttacggccctgcagatcaaacagctgggtggcccacttcccaaccgaccacctactgacaaggacacttgtagatattgtaaacagaagggacactggaaaaagattgtcccatcttanataaaaganaaancaaagacaaagaaaaatccctcaattcagatcaatgagggtgctccgaggaaggaaaaagcacccaatatcctgccttacccttaaacactcaaggtgaattaactataaatatagatggtcaacctcantcaattcctggtagatatggaagtgctactctttctacattaaaccctgccacctttgctcaacctcttcctcggagtaaacataccacacaggtggtaggtatttcaaataacccacagattttccctatctcccagcccttaaccgtaacccttggnccttgactgaaaacattccttcctgctctgtgataccacccctgcaaatttaatagggagagnacttactttgcaaatggaattgtaatattaaatgcacaccagagggactatttcttgaggttccagaggactcctctattcataatcaagttgtgtctgctctggatatacctttgccttctccattatatttgatgcataccccagataaanacaccgtacctgacactctatgggctaaaaattccactgacataggaaaaataattggagcagaacctattaaagttcagatatcctaccaaaccgttacannccaaacttctnctttttgccttcacctggggaggacaacaatatacctggacagtcatgccccaggggttcactgaagccccctcctacttttcccaggtcctcaatcaagacttaaaagatctaaatttcctcttgtgattcagttctgatacaatatgtagatgatctcctcgnnnnnnnnnnactttgttcagagaacaaggaagcctgtaaaaagagattccatttacttgctctcagccttagcanngaaaagggacataaagtttcaaaagataaattacaannttttgccaaaacacagtccattatttagggcatgacctatctnaagagggaaaacattctctcctgatagactaaagactatccaaacttatcctagacccctcacaaaatgacaattgagaggatttctaggtttaactggatattgcagacaatgggtgccaantatttttctgagattgcgacacctcntttatgaattgactaagtcctcagtaaganannctctcttctccggganctgaagaaggctcttcaacagcctccttccctaggcatcctacaaatgaaagccattttgtctatttgtgcatgagcgatctggacaagcccttggggttttaactcaacttcatgggaaccatccgaaaaanccatcgcttactatagcctcacccttgacccggttgcaaaggcttatcccccttgtcttagggcaatagctgccactgcaaaacttgttgatgcttctgctgaactagttctaggctccccgcttgacctcatggttcctcacgcagtacagacattactactgactgagaacacacacttttcagccagccgattaacctcttatgagattctgttactctctccctctcacattactattcaccgctgcaacaccctgaatcctgccactctcctgcccctaccagaagaagggaacctcatgattgtcttacctnagttaggaaactttctgtacctcgctcagatttattagagactcccattgagaaccctgacctaatattatttgttgatggatcatacctcaaaactgaaactggaggttatcaancaggatatgctatcactaatntaagctctcctttagaatatantcctctacctgaggtaaaatcagcccagatggcagaanttattgcacttactagactcacgaactcgtcaaaccgngnccagnttgtcaatagacnaagacctagtanacanatagcaggtacgcttttggagtagtacatgactttgggatgctttggaaacaaaggaggttcctcacntctnctggaacncccatcaaaatgggcaagttaaggaacttttagatgcactcctattcctagaggagttattataaaggttgaggctcatgaaanaganaatacggaagctaaaggaaatgtctctaagcagntcattatgccaaacaagcagccttaaccaaggttatgancctatctaacctcaaaggataaatctctggagggattcaaaggaggccattataannaatatcaacgtttagcccctgattttgaaaaggaagaatggaaaaaatctggttgtacccttcactcagataatctctggcgctttggtggcaccagatgatttcaaatggatattagctatttctccatgaaactactcatcatgtacagacaaatggttactatcttaaatcaacattggtggggaaactttaaagagacagcngaggttatttccgggtnatgtgtnacntgtcaacnacanaatcctggaaaaaccgtaaaggtgggacatggccaggaaccgaagcctcaagggccctttggacacttcaggtggattttctccagcttccactctcatgggatttgaatatgttttngttatcgnatgtctgttttcaggatgngttgaagcatttccttgctcaaaagctacagcccttncagtcgntaaaangctncttgattttgtgtttccaacctgggcatnccaacttttacatcaagtgancgaggcatcaccttacgggaaccattataaaataactctgtaaggcgtcgccccttactcaaaaactacactgtccttaccgcccacaatcttctggaaagnttnaaggaacnaatggcatccgttaagttaattancaaaactttcagaaacccttgaactcccttggccaaaggtactcccactagcacttacggccatatggtccgctccctcgaggacgcatcngttatcnccctatganttggtanctggaaggcccatgcgtttagagatttcacctccgatactagactctgctgcacgcagatacggcaaaatattnaagggactcatgtgctatgcccantcctatcancaanaggttaaggccgccttcccactacatctttncaaacngcctccttaatgatcttcaaccaggagatttttgtctattggaagagacatcagagaaaaactgctcttgaacnttcattggaaggaaccttatcagggactttancaggtactnttaacaacaaacacagcagtgaaactccagggagtcaatccttgggttcatgtttcacaactaaagaagcaattcagaattccacacaattggaaggctactccaacagaggacctcaaactgggattctcagagatcctctagaagcagccgatcttcggaagcagacagctgacccaagaccttcggaacaagccgatgacctcggatagtggacagcttctacccaagacatcggaccaagacccctgtctaattcctgttttgtttttcatctgcttgcttataatcattcttctcattttctatagacccctggttgtcgtccacccataatggccctttttctcttttctttcctctttattataattgttaggtcagaacatactcattctaatgccattcttagattatcccaaacagtagccactgccctcaatcttaccgactgctggatatgccgtccatcaccggacccccatgataaaaacctctgggcaattccggtctcatcaaatgagaccacagggaattacagccgatggcgtttccacttgcacctacatggacaaatgaccttaaacaaatcaacctgtgactttgctagtgtccctctctcccagaaaaagaaccaattattacaatctattgatcagaccctaggtaattctaaatttgaattcaacaaccttcgtagggcgatgggccaaatacttgccacctggaagagactaatagagatccaaatatgtaacccagctaatgtaaggccttggttccgacctcgtgtcatgaacaactccttttttctggatctccatgtgcccctaccggatactacttccttgcgnccggacacctggtcctgtttgcctcagactaacacctcatgcactttaggaatagtattccgagacctntctggtacacagagaccctaattctataaatcaccaaggctggaaattccgactcagacgcgagctccaaaacgaggccaccctttgattattcaggcactctacctgggggaattactgactcattgtttatgcgaacaatcagagcagtgttcccaacggtgggaatcatacaaatagaaaagactgtaagaaacttatcactaactctggcagaagttattaacgataccacctctgccctagatggaatacagatcagtctcaactcgttggcacgagtagtgatggacaatcgcattgctctagatttcttgttggctagtcatggtggcgtctgtgccattgctaatacttcttgctgtacttggatcaatgaaacaggcaaggtagaacaggctatacatcgccttaaggaaaagctacttggctctctaaggttgatcctcatggcctatgggatttgttctcttggcctgggttgggcaattggggttcctggttccgaagcatcttacagggactattaattgttcttgtttttgtcatagtggtcatgatgctggtccgttgcattctatccagagtcttaaatgcttctgcgcagccgctctctcatcagatgatcgccatgatgatacaacaacaaaaaggtcaagaagatctcgcaatacggttgactatggagacaactgaacaatctccgagcggtgaagatctggatctctagccttccctgaattggtcaacctctcgcaagtgagagaatgaccaaaaggggggac
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 30 99.0 Highly correlated
2 ZNF723 8 15.2 Weakly correlated
3 ZNF705B 6 28.9 Weakly correlated
4 ZNF735 4 28.9 Weakly correlated
5 ZNF680 4 28.9 Weakly correlated
6 ZNF679 4 28.9 Weakly correlated
7 ZNF263 3 180.0 Weakly correlated
8 ZIM3 2 87.0 Moderately correlated
9 ZNF766 2 43.0 Weakly correlated
10 ZNF677 2 99.0 Highly correlated
11 ZNF597 2 94.0 Moderately correlated
12 ZNF558 2 99.0 Highly correlated
13 ZNF506 2 28.9 Weakly correlated
14 ZNF479 2 6.4 Weakly correlated
15 ZNF41 2 99.0 Highly correlated
16 ZFP37 2 99.0 Highly correlated
17 ZNF141 2 43.0 Weakly correlated
18 ZNF157 2 99.0 Highly correlated
19 ZNF33A 2 99.0 Highly correlated
20 ZNF182 1 99.0 Highly correlated
21 ZNF786 1 99.0 Highly correlated
22 ZKSCAN8 1 160.0 Weakly correlated
23 ZNF101 1 43.0 Weakly correlated
24 ZNF705D 1 28.9 Weakly correlated
25 ZNF133 1 99.0 Highly correlated
26 ZNF701 1 28.9 Weakly correlated
27 ZNF665 1 28.9 Weakly correlated
28 ZNF214 1 99.0 Highly correlated
29 ZNF257 1 0.0 Weakly correlated
30 ZNF554 1 99.0 Highly correlated
31 ZNF549 1 87.0 Moderately correlated
32 ZNF317 1 99.0 Highly correlated
33 ZNF486 1 8.6 Weakly correlated
34 ZNF334 1 99.0 Highly correlated
35 ZNF44 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 5 15.2 Weakly correlated
2 ZNF735 4 28.9 Weakly correlated
3 ZNF382 3 99.0 Highly correlated
4 ZNF680 3 28.9 Weakly correlated
5 ZNF263 2 180.0 Weakly correlated
6 ZNF677 2 99.0 Highly correlated
7 ZNF506 2 28.9 Weakly correlated
8 ZNF479 2 6.4 Weakly correlated
9 ZNF157 2 99.0 Highly correlated
10 ZNF549 1 87.0 Moderately correlated
11 ZKSCAN8 1 160.0 Weakly correlated
12 ZNF766 1 43.0 Weakly correlated
13 ZNF701 1 28.9 Weakly correlated
14 ZNF585A 1 99.0 Highly correlated
15 ZNF554 1 99.0 Highly correlated
16 ZNF257 1 0.0 Weakly correlated
17 ZNF44 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