ZRdb KZFP & Repeats
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LTR_LTR46-INT

  • Name
    LTR46-INT
  • Repbase
    HERV46I
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0000529
Description :

Internal sequence of class I endogenous retrovirus with LTR46 LTRs.Possibly an autonomous element although there are frameshifts in thecurrent consensus.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
ttttggtgccgaaacccgggacggcggattgggttctaaacgggtaagtcttctcttgcaacctggaaagcagcaagcagcaaaaactagacccgggcctgcttccagatcctgagtggactccctgttcccagccccgttccccttattctctcntcttctccggccctgggctaacctccagatcctgatcaaactctccatcctctttttccttccttcccctttccgggcggctccggcaaggatcacccccattgctggacatcacatccaacaccggtctccaattagtgggtgagtctcccttttcctcctttccggattcctctctatttctgccggttcaccagaaaatcccagcgctgggtgagaggtctccccggtcaccaggtgaccgcggcctgccttctcaggggacgccctcagaacgctcgccactccggccgctccggcctccgggggacngcgaagagctgcggggacgccccggctctcctacgtcccttctcccgggaggaatcgggtactcactcccctccggggtactcactcccctctggagnactcactcccctctggggtattcactcccttccggggtactcgctttcctcaggggtantcactcccatccggagtattcactcccctcttccaaaaaacaaaacattcaacttccaaattcaacataatctaaaaaacttcctccaacgcaatggtaaatgatccgaagtgctttgcttatctccgttcgtggctcgctctctctctctgccaatcctgttcaccttttcaaatcctcctcctcaacgaaaaacccgcaaaaatgcctcctcctccggacaagccttcctcctctgaatttcaacccggccaacaaaccccttcctcngtcccccgcccacccccatcccctcctccttctccttcggctccggctcctccacccccttactgtcgccctccgtcccccttccttctccaccgcanaccgggtctcacgcccaacccccttccgccgaaaaccaggcacacgcccaaaggccctccaaagtcctccccttgcgggaggtcgcgagggccgaaggcataatctgagttcatgttcccttctccctagccgacctctcccagnttgaaaagagacttggctccttttccacggatcccacctccttccgcaaggaatttctgtatntcactcaatcttatgaccttacctggcatgacatntatgtcatcctctcctccaccctcaccccggaggacagggaacgcatctggacggccgcccaggcccatgcaaacaccctccaccaacaagatgctgcccataacccagtagggaccctagctgtccccagaactgaccccaattgggattatcaggcaacttccgcagacagacagaaacaaggccatatgatatcatgcctcctagctggcatgaataaagccgcccctgctcttttcctctcccgcctttcagaggccgtaactaaatataccaccttaagccctaataccaataagggcagaatctacctccatttacacttcatttcccagtcagccccngacatccgaaaaaaaacttaaaaaactggaggatggccctcaaacctcccaaagagacttaatcaaagtggcctttaaggtctttaacaatagagaggaagaactgaaaacccaaaagctaaaaagggaccaggctaaataccaaatgctggcagctgccatncaacagggttcccaacgcatacagaaatcctcaacctcgcgacagtcaactctgccgggagcctgtttnaagtgcggccaacagggtcactgggcaaaagcctgccctaatcccgggccaccctcaaaaccttgccccatctgtggtatcaaggaacactggaagtcggactgtgctcagcgaaactcttcatcccgcttcaccacctctaactgaagactgacggggcccggagtccaccgcccccaccgccatcaccacctcggaacccagggtaacgctgtcagtctctggtaagcccatgtctttcctattggatactcgntggggcgactagttactcggttttaccagaatattctggacccctcctcagttcttctatctctattgtgggagtcgatggaatcccctctaggcacaaacagactggtcctctattatgcaacctattcaacancccccttcacccactccttcctggttatccctcagtgccctacccctatcttggggcgggacatactaagtaaattccaggcctccatacaatttgcctcctgcaattctaccccttttattttactctgccgcccagacgcttccctctcctccccctcatcctcattatccaccctgttaccttctgttaatcctgaagtttggaacgtttctaaacccacaatagccacacatcacatcccagtcaaaataaccctccaaaacccctccattttccttcatcagtctcaatatccccttaacccagccggcctcaggggcctcaaacctattatctgtaaacttttacaagctcaaattctcaagcctgtcaactctccccacaacacccctatcctggctgtcaaaaagacagacgggtcttaccncttggtccaggatctccgagttgttaaccaggcggtggtgccaatccatccggtggtccccaacccatatactctactctcccatattcccccatctaccacacacttctctgtattgganctaaaggacgcctttttcactattcccttaaatccggcttcccaaagtctttttgctttcacttggtcaaatcctaatactcacacgtccacccaactaacatggaccgtactcccacaggggttccgggatagcccccacctattcggacaggccctcaccaaggacctagctgaacttccccttgctcctagcaccctcctccaatacgtcaataacctccttctctgtagcccctcccttaacctgtccatccaacacaccactcagcttttaaacttcctccatagtcgaggatatcgggtctcacccacaaaggctcaggtagcccaaacccaggtcacttaccttgggcttgtcctaacccctaattctcgggccatcccaacccaacgaaaggagctaattcgggacatgccccttccccacacaaagaaggacctcctctccttcttgggccttgtgggatacttccggctgtggattcccaacttcggcttgctggccaagccgctctacacggcctcacgtgggcccatcctagaacccctgaacccagcttgccccatcaactcccacttaaaaactnaaaaatgcccttttaatggccccggcactgggactgcccaaccccaccaagccctttactctgtatgtacattctgaccaaggccttgctcttggactactctgccaaacatacggcaacgccccacaagccattgcatacctctcaaaacaactggactctgtcatccaaggctggccaccctgcctaaaaatcttgggtgcggccacattgctggcctcagaggcacagaaactcactctctaccaacacattactattgcatcttcccataacctacaggacctcatgagccatcaatcccttctatccctcccgccatcccgcttacagcaggtacacgccttattcataggnaaccctctaatcaccttccagagatgtaaagctctcaacccggccaccctcctccctgtaaacacctccgactctgagctctctcactcctgcctggacctcttagactccctctcctcccccttccaacacatttcggaagcccctttgcggggaacacctacatggttcattaacggaagctcttttagggagccatgtccagcagctggctacgccatcattgccgaaaataaactcctagaatccaatgctctcccaccccatactacctctcaacaggcggagctagttgccctaaccagggccctcaccctagcaaagggaaagagggttaacatttacaccaattccaaatatgcataccacgtcctacactctcacgccttaatctggcaggaaaggggttttctaactacaaaaggaacccccataggaaatggcaaactcatacacaagctgctggaggcggctaaactaccactanaggccgccattatccattgcaagggacaccaaaaggctacagatgccataaccaagggaaactttttagcaaattcggcagcccggcaggcagcccttaaaaccccatcattattgcccatttttcccagcatacaccctgtatatacccaggaggaacaaacctcactcgcccgggctggcgccgttcaggaaaaaatggttctacctcaatgacaaaattgtcttgcccaagtcccaaaaaccttctgtactttcatacgtgcacaaccatttccatgccggttactgcccctactccagcttttaaaaacttatatacattctcccgccatggccgccaatctcaaagatattactaaggcgtgttccctttgcactcaaacttcccctcaggaagctatcaaaccacctcctttccccacacaccaggcccgaggacacctgccagggcaggactggcaaatcaacttcacccacatgccccccataaaacgagtccgataccttctgacaatagtagatacattctctggatggataaaagcttttcctaccaccaccgaaaaggcacacaccgtcgcttctattctcctcacccatattatcccccggtttaaactcccctcttccatccagtcagacaacgggccaacatttgtttcacaggttaaccaacagctggcgaaggctctaaacattaaatgggccttccatattccttaccgcccccaatcttcaggtaaagttaaacgggccaatgcccttttaaaacaacaactaaccaaactctccctagaggttaaaatggcctggacttcacttctcccattggccctcatgcgtttacgagccattccccaaaagcccctcagcctaagcccatttaaactcatgtacaaacgcccctttatcctccagaatctccctgtatcttcccccccttctatacgggatacttggccggcattacacctcactcaacatctaataagacagtacgcaaacgcttacttgccccagcctgaaagtccatcctcaaaacactcctccctgtccctacaaccaggggactgggtctggatcgcagactcctcctcctcccctctccaacctaagtggacgggtcctcaccaggttatcctaactactcccacggcggcaaagctaacatcctttccacactggatacaccattccaaactaaaaagagcaccagatccacatccagaaatttcctcacccccaaattattctccctccctcacaggaccaacctcgctgcacttaacaagaattccagaagttgccaatccagaaggccctggtccataacactctccgcctccaatttcaaatcttttatctcataccttgtttcagatctttcctggtatcccttccccacgtccctggatagtccactccaatttctcacactaatccaggagctatggctgcagggcaccttccaaaatttcactcctactcaaatctcctttttctccttttgtcttctttgtctgtgggatactctaagtccccacccccaacctctggcagttgggcccccttcgtcagcctcacacattacctcttaaatcagtcacactcccctctttcttccaactgttaaatttgtttgtccacacaaatccagcagttcacagcccttcctgttaacctaaccacataaacccggtccaaaataaacctgcatctcacctactcggccaatccattcccaaaacctgtttataatcttgctcggctaaacacctttccccccaatccatcaaatccacccacaccgtcacacacagggctgtcaccctccttcgcctcatggcctctnaactaaacatgttacaagccggattccataaaacaccccttaccaacccctcccctctctgccggngccgctctccatgtatccaactcaagggcgctccctggaaaaaatgcacaaacaattccctcaactgcaacctntatccttctgccctatcaggaccgcaatggctattagttacaaaaacccatttctctctctctctccaaaaccaaacagccttcacctcctcccccaccaacattccctatcaggccctcacaggggctacccttgctggcagctattcaacttggaaaaacaaaaaagttgggacaaaaagtttgtccaggattcaacccccaccttctcatggctcgctaccttcacctacaacttttgcctgtcnacccccggtctcttcttcctgtgtggcacaaactcttatctctgcctaccggccaattggtcaggaacatgcaccctggtgtttcaatctccaaacattaacattttgccnaacaaccagaccatccaggttcctttagtagcccctgtctcntcttcctccacacgcactaagcgggctctacatctcattccnctgttagcaggactaaacatctctgctgcactcggcaccgggatagcaggtngcccctttcttagggcccctaatcttcctcctcctaatactacaattggcccatgtatactcaccttcatatcccgctttatctcccaaaggctgaactcccttgtccaggcagccacccagaaacacattgataccatccttctcctccgccaagtccggtatcagcgcctccaggaaaacaactctgaagtcggacacccactgcttcaaaacccaaaccctgattacagcgcccctattcagcaggaagcagccagataatcaacaacgcccctcttccttttatactaaagtagaaggcaagaa
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 ZNF320 7 28.9 Weakly correlated
2 ZNF680 4 28.9 Weakly correlated
3 ZNF140 3 99.0 Weakly correlated
4 ZNF263 3 180.0 Weakly correlated
5 ZNF534 3 19.6 Weakly correlated
6 ZNF766 2 43.0 Weakly correlated
7 ZNF75D 2 94.0 Weakly correlated
8 ZNF735 2 28.9 Weakly correlated
9 ZNF331 2 94.0 Weakly correlated
10 ZNF382 2 99.0 Weakly correlated
11 ZNF468 2 28.9 Weakly correlated
12 ZNF479 1 6.4 Weakly correlated
13 ZNF705B 1 28.9 Weakly correlated
14 ZNF610 1 28.9 Weakly correlated
15 ZNF584 1 99.0 Weakly correlated
16 ZNF528 1 43.0 Weakly correlated
17 ZNF490 1 43.0 Weakly correlated
18 ZNF486 1 8.6 Weakly correlated
19 ZKSCAN8 1 160.0 Weakly correlated
20 ZNF394 1 99.0 Weakly correlated
21 ZNF257 1 0.0 Weakly correlated
22 ZNF197 1 99.0 Weakly correlated
23 ZNF141 1 43.0 Weakly correlated
24 ZNF101 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 ZNF320 4 28.9 Weakly correlated
2 ZNF468 2 28.9 Weakly correlated
3 ZNF735 2 28.9 Weakly correlated
4 ZNF141 1 43.0 Weakly correlated
5 ZNF257 1 0.0 Weakly correlated
6 ZNF263 1 180.0 Weakly correlated
7 ZNF331 1 94.0 Weakly correlated
8 ZNF589 1 28.9 Weakly correlated
9 ZNF75D 1 94.0 Weakly correlated
10 ZNF610 1 28.9 Weakly correlated
11 ZNF680 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