ZRdb KZFP & Repeats
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LTR_MER76-INT

  • Name
    MER76-INT
  • Repbase
    MER76-int
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000932
Description :

Note that MER stands for MEdium Reiteration frequency interspersedrepeat. As such, MERs as a group are a grab bag of DNA transposons andretrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
aagtggcgcggcaagcagggtggtcgattaagcacaatgccatttngaagagcaaaaagcctgaagatcccacggggcatttgnnantgggggtgctagcgganccgcggggcactctcggagggtgctagtggatcntttgcaagagtctgaggatccgagagtttgccagtgggtcttgggaagtgctagcggtcccgcggggcactttgccagccatgccagtgggtctcgggaagtgctagcggacgccacggggcactcttggaggatgctagcgaattgtttacanaagcttttggttcgagggggaccantggtcctcctntttatcccaancncctcggctgagntnacctagtgggtcaaattagagatccagcagaggggctctgagaaagctagggaagcaattccctggccaccgcttatngccctctgacgatgggnccgaaagtcgtcggagaccctgcgagctgagttgcacccaatgactattgttagctctaagcaggtccctggcantgacggacagcctgcgacgcagcaagttattgagactcgtgctttnaatgaaaaaatgtagagccttgggatcgcttcgcccagcgacccgaagagaccttagagacntggttagtttgcctccacgatgaaggaggtaatcttgttaaacttagtgagggagagtggcaccttgcggggtgcgtcactacagacccctccttcagagtgccctgacagcggccactttgcctaaggaggaggaggaaggcggggngaatgagangtacgaacacccgagaccctctccttcctcagctgggtactatttgggctctgacaggtttggcccacccatgatgagttccctgccactgaaaaacatgtctggaccaccntcgcagaggctatagacggccctgnagccaccccggtggtcccttgggtccacaatgagggagtgagaacagtagatgataagatcgttaaccagactcagatttctaggttcattcgtgccactcctgctggttatcgagcccaattaaacctcctcatgaggtcaggtcaatcggtccgcgacacaatccggatcttaactgacaaattctcgggcatggaaaaagcggctactgccaagatagcaaanatngaccaacagagaggcataaaaatggtaatcgggcgccctctcctggacgatctgggcaagggccttcccgaagagatctctgagtctggttactcaataacggggtctcaaaagaggagctgatgggctccccaccaaggaactcatggccaggtactgggccacggggggctcaacaggcggccccgctagggtctgcacagtgatcggtggcggcccctgtgatgacactgtgctntctgnccctcccagtgagtctggagatgaatcggagancctcgagcttttacccggacctctagctttcaaaaataaacaagactaggggttaggccgaggtccctctgtccccaggggggaccagaggccctatgccaaggtcagagttcaatggggaggtgggaggaattgcacttcttgggccttttggataccggtgcacaggtgactngtgatccccacaacccctggcaccaggatgaggggaaacagataatgctctctggttttgggtctgaggccaccaccactgngtctcgactgggtgagtncttcgggcccctacaaacctccattgttatggcccccactactgaatgtattattggtatngatgtattgtctatgtgcacccccgctngccttcgcccccagccctgacgggaattgctgcagttagggccattttagtggggcatgtggaagaccgtgaacctacccgactaccggcgcctagtgccgttgtctcccncaatgcctagggagaaaaaaaataactgccctcattgccgagcttaaggaagccaaagttctccgtgagactatttctccattcaatagccccatctggcctgtgcgcaaggcctcgggtgcctggagactcaccattgattataggcggctcaatgctgtantgccgcccttggcaccggcggtacctgacattgtgactgtcacagaggctattgccaagctgagngaacttggtatgcagcaattgacatcgcaaatgncctttttcagcatccctctccatcggatgatcaggatcagtttgcctttatgtggaatgggttgcaatacacctctaatgtccttccacaaggctacctaaattccccggctatctgccatcgatggataggccatgactcngaaaagtgtcgcttncctggaggaagcactagccttccactatattgatgacatcctcctggtgggcccagacaaggacaccgcccaacaaggactggatgctctgttgacccacatgcggcaacacggctgggccattaacagacagtacaaggacctaccaagtgaaattncctgggcgtaatccgggaaggtgcataacattccagaggagacgactgccaagcgttttggccctctctgccccaacaaataaaaagaacccagcgattngtgggnctattcggctactggcgctctcgcattcancccacgcgggaatcttgatggcacccatctatngggttaccagaaaaggccgctacctttgagcggggcccacccaacaggctaccaagcctccaggcaccccgacccttcccctgggccccacngatccacatttgccgtttgagttacaggtctcagcaacctctcagttcgcattgacctatggcagaaggacaccgccacaggtcagaggcgcccgttgggcttttgacctataagctcccggagtcagctgaaaggnnntacacacnctttgagagacaattattggcctgttattgggccttggtggatactgagcgcatgactcatggccgtgaaatagtcttatgaccagaaatcccaatcatgttatgagtcgagcagaggcctcaaattgccaggtgggggcggctcaagaanttattctctagtgaaatgaaaatgntncacacagaagcgggtaaaacccggccnagntgngttagcaatnnnanncttcaactatggaaaggnctcaggagtgttcctccncccccaggcatgtcgcccaangagccgctgcctccactggcccaatgggaactcagatatagagacctcctggaccacacataggcctggttcactgacggctctctcggttaacntttactaggctggaacggggtgcggctgccatccgacctgaganagatctgtcccttacnagcacggtaaggcatgttcagcacaatgggcagagcttcatgcggtatggntggctatccaggccaccccagcagatgagccntgctgtattttcactgactcatgggctgtagctaatggcctggccatttgatcgggccactggcaagcctggactggcatataaaacaagcccccctgtggggatgagacatttggataaaaatcagttctgctcctaataagctttttgttacccatgtggatgctcaccagaaaggcccctatgctgacaaagggaannataaccaatgagcagaccgcgcttgtcagctaaacgcggagactgaattgtcctccgctccagagcaagcagatgtgcgaccgatcgcctcctggatccacgagaggaggcccatggaaattcagacaccatcctagactgggcctacacgcatggactgccactgtcgtcagaagacgccgaaacagcatggaaaagctgtcccgcctgccagaccctggccaaggctaaaaatcactgcccagggacagantctctcgagccaanaggccaggacgttcttggcaggtagatcacgttgggcccctcatcccatccagagggttccgctggatcctgactgcagttgacactttctccgggtttggcctagccatccccgtgcgttccactgactcgggccacactatccaggccctacaagaccacatttgtttcctgttcgggtttcctgagcacattgcatctgataacggccccagatttgcggcccaagctacacatcagtgggcccaatcatggggcatacgatggactctccatgctccgtatcacccccaagccgcagngatgattgagcattttaacggacaattaaaggacaggcttaagcggctgatgggaggggacaagataaccccagcctggctacacatctcaggcgagcagtctggggtctcantgcagcaattccccgaaagggcacttctcatttgcgccncgtgtttgatcggtctgcccccttccttcaattgtacacccttcttttacaattattgacacntcggtctccacgggggaccctgcaagggccttccatccccttcgacccctttctgaagactcaaanttanttgggagatcagaacggctattaaacagcaaggagtgggagacggtaacctcctctatttaccccccggntgcanngcntgaattttgcctacaaggacttcaaagataatgancatcaattcgangtctctagttcaacattttccttaaggtggccctgctgctttnccccgtgtagccccatgggatgatatcaaatatcagatagaaactttnatngaaccncaggagaagccaagccagaanatttaggttcaccattctaggaatggattaagagcgctattcttgctcatggtacgggacagactgcccacgtcgcagtcaatgaggaagagtcccctnaactgataggacgtgagcaccttcggacccgngagccagatacggggcaggaagaagggatctaacctctctccctctctcccacgnagtagnccttgtgactttcgccttaccaaattcattgatacgcctgcccaggcagttgccatcacnctgaatttgacgagctgttggatatgccacccaccctgaccccgcagataaatatctgattgctgtgccgccgaatantacgaacggacgtttctctaancatggacctttctggcacctcaggtaccctaactttattacacccggacccgacgcgttgcctgacanntggactctgataccgcaggaacgaaatgacctcctagnatgtcaactcactcctgtcccacatgggagcaattgaattatctgggaagaggggcntgtggtctgccactggagccattttggcctcgatggtggtggcaacttactcctctnctccacttgcccccnccttgcacagactcttcagttccactcaggnactctgcccactgcctaccaggagggacttctggnnggttganccccatggtagccaatgactcttacactcccaganccgatgtgcactcttcttggggtattntttcttttntaaanaccaggccttcancattcctttttgatancnntgtaacntgcacgaatggggcattgataagagntnctcaaatattcnaagcagcccctcccanngagcatgtngcaccacgcngagcaaggcgngagctccagaaccaggcnnaccccggttactcggggggnttgccggntgagaagcactgccgaccgtctttgctcatgngnatgctccgggcggcttttcccactgctnagcgtcnctcagtnagaaaaggttgtncgcaacctgtctctnaccntcgctgaggtcattaacgacactacctcagctttggagacanaacagaccagcctcagctcttcggcncgnatagtgttcgagcnagccgcatagccctggacttcctgctggccagccgaggagggtntgtgnaattgccaacacctcgtgttgcacctggatcaatgaaaactggcaaagtagaagaatccggcatctctaaagtagaccctantggctatgggacatcttttcctggcttggcaactgttggggnctcatggttatattcagtcctccaggcaggcctgnnatcatcctgcttggagtgattttgatcatggccntggtctactgttgcctcagactaattacccggttnttgncacagcccctcaagtccgacctattcgggtccatgatagggtagcctatgtttctcgctcgggtcctgaaaaatcaagggtatggagt
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. :
...
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 ZNF680 4 28.9 Weakly correlated
2 ZIM3 2 87.0 Moderately correlated
3 ZNF274 2 99.0 Highly correlated
4 ZNF394 2 99.0 Highly correlated
5 ZNF479 2 6.4 Weakly correlated
6 ZNF610 2 28.9 Weakly correlated
7 ZNF101 1 43.0 Weakly correlated
8 ZNF251 1 94.0 Moderately correlated
9 ZNF263 1 180.0 Weakly correlated
10 ZNF317 1 99.0 Highly correlated
11 ZNF347 1 43.0 Weakly correlated
12 ZNF382 1 99.0 Highly correlated
13 ZNF695 1 28.9 Weakly correlated
14 ZNF735 1 28.9 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 ZNF680 2 28.9 Weakly correlated
2 ZNF479 2 6.4 Weakly correlated
3 ZIM3 1 87.0 Moderately correlated
4 ZNF735 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