ZRdb KZFP & Repeats
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LTR_LTR23-INT

  • Name
    LTR23-INT
  • Repbase
    HERV23
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0000463
Description :

Internal sequence of a MER4-group retroviral-like sequence flanked byLTR23s. The sequence was deduced from GenBank sequence Z72004. Theentire retrovirus including LTR23s has been found as an insertion inMLT2 sequence (positions 33012-46193, reverse orientation). Not basedupon a consensus, but from a single copy. While originally named HERV23,this is clearly non-autonomous.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tgtggagctctcgggatctgaatctccctggcttggctgagaattcggactttattcgagccatacacactcctaacttgacggggctggaattgaagtctgctttaaggcaggagtttcatttgttattctctagagattgcggatttgtgattttcacttttctctgaggttaaggttttgtnttgncttactcgttagagtttttgcaaccttttctctcgttnaaantttggtcaaggagaaaancagnttttctctctgaaaagagaaagtgaatntttgtggcttaagcaaaatttgtaatctttaaaactggccagattctgaagctcggttcaattgacaaatctaaactttcttttgagtgaccaaaattcctcccgctaggtctttttggtcattcaaaggganaatctaaattatgggcaatcgtacttctataaccgagncttccttaaggagagatccagggacggatccttgatttttaaagatctagatgctctgccttccagctgtgcctgcttttcacatattaaatattaggccctgannnnaaaccgtgcaaatgctttctttgccctattcattaaagggctccaccctgaagtcagtaatctaatnaagaaacaagctaagttgaaaagaccacctatctaactagatcggtctccaaaatacgactttctggcatttagctggctattttgaaactctttgtaaaagaaatttacatctataaaggaaatctccatttgtaagggcgtctccctttctgcanctaagccgctagaaacntttacgntggggaagacattacgtaacaaaccttacctttgtttaagatacttttcctggaatcttgtcttgactgggcctttacctatgcccttctttgtctcagcaaataatgntgtttagatctaagttctgtgcctttgagatgtaaattttcacctaagagtcatgtctttggaagtgcaaatttagggttgcctagctaacaattgtttagggcttgatagtctaaaggggggagagaaactatttgaaaactggcaaatgaagaatcttataaagctataagatcttctgtctgtgtgtctgtatgtctacgtcgnccgncgnnnnnnncgnnnnntatgtttatatgtgtcatgtgtatgtgatatttcactaccaaaatatatgaatctaattaattggcttaaagaaaaagtaagcgcttaaatcaaatattttatcagaaaaatagaaactaactcaaatgccttttagttcacgtgacttgggtaatctttggtaaataagactagtttaatattgttggtttaatgaaaacagctgtgtcttctgatcagcaaaatacccatgtatttaactttagggttcttgcttaggtggcgactgcctannnnnnacattcgcangctgtaaaaatgattaacaaaaaaacttgagatgatggctagctttgtttaatgagcaattcaagcataattgttaagaatgagtaaattaggtgaatgtaaatgggataaangtttataaataaacttttcatagtttaaaaatctttcagtaacttaatcttaaagtcatgttatgttaaattaagtaatagataatcataaaatgtctgagtcatttntatggtatagaaaagcnaaatatatttagatctgttaataaacaaaaaaagaaacatctttctaaaaattatgaaatggttttcatctacaaatactggtataaaacagttcaaaattacttacttcctaggtttttcactggaaattagggttactaagagttaaaattgtagttaatnnntatatgtaattaaaactantagatataagagaaacaattctatatacagagcatataaagaaagtaagatgtatttttggtaaagaaagntgaaaagaganagtaatntttttntttttntttngcataagagagaactttgtgtggtcaaaatgataaggggaaaaggaaagtaaatttttgtcctaaggtagaatgccaatatntnnaaaaaggaagnataggacaaaaccgaaggtttaagcaagttgtagaaggtttgtggaagattaatctcgtgaaaggaattttgtgtgtgatcaagttggctaaaattagaagggaattatttataaggtttttctaaaaattgagcattaatatcaaaagcacactgatgcaaggccagagtctgggcccctgtgttggaacaacagttttctcggagcattgatctgctctttaatagaaaattgtaagaggttataaaaggtttatggaaatcttatcttgtgtggtcaaagctgactgagattggatggatttgtttntaaggttttattaaaattagctttagcattgataatacactaatanaaaagtaaaatttggttttctccntttgaacaagattttatgtagtattaataagagataagatttgtttaccttttgagtaaactgcaaaaaaaaagggaagagttngtctcatgctgtctttattaggtcttttgattgggaactgagtctcctctctatcaaagagtaaagnttttgctttttgaaatcttnncgnntgaattatcattttggctaaataaatgactattattttacagtctgtgatcctattttatcatgtgttttaaacctttttaatttcaatatcaagtgttttaaacctttaatatttgacatacttaaaatcaaatttcaaattctaaaattatctttttgacccgagctaacggacataantaacaggaaccctggaagtccaagagagacatattaggcttatttcatataggaagcattgtcaaataagaaatggtgtttaactttntttgagttatatttgtatagatgtgttattaatatgtgttccaaaattgtatgagattcctaaaattatgtcttggtatatgttgtcagncataattatgattatgttaaactgttgtatcgccacagaaantaatcaatttcctgtcaattncgtctttaaccannnnntggctattcnaagtcttttgtcatccacaganaattattgttttactttgattcttctcaaaaagcggtttacaatcggctacagtccaaaattngctttttcttcaaggaaattcatggaaaaggaccctgacaagtactcttgaatacaggtttctnataactttggagattatattantggantnagtaaaaattttcagaactctaacaaaaactgatgtgttcataaagattgcnaacccaacatcgnnaagcagaacaaaaattaattacatgggactaaactgatagagaattaaantgatttttatgacgtttttatttgaaacattgttgattctttttanattttgtttttcagagtcaagaaaacanttttttttagctatttatagcttacagcaattgggtaaagtatanttttgtgaacaaaantgaaacatttgccnttccttctacctggtttctccaaaatttgaaaactattcatgagtattcttattttatggcaatntaatttcataanttcaataaaaatctgctttcttttntaacgggacacattggagacattggttattttaccaaggctttgactggaatggcgtattttcggatataaccagactgctttgagaaattaaagccacntggaaagaatggcctggnaccttgtctacacagttncctttcaaggtttcngaccttgcagtaaataaagaatatcactttccgacaggcccgggaaactcaagatatttggggacttcgagaagagagaaattcactcaatttgtacaggtattacaggtaccattctatngtgaatctttgncttggcttcctagcctngagatnnttttaanagcctaatntgaanctcctnntgagaaagtttcagcaaagccaacttaaannnnccgnagagcctatatggccaatcgctattcttgtngntgtttatgcaataatcaggctaagtataatactaaaacttattttgcaagtaaattggtcctactaagatttntctttggtagaaatggggaattggagagagaaaagattacgtttcagaagaaaactattcttgtgnatgtttatgcaataatcaggccaagtataatactaaaacttattttgcaaataaattggtcctactangatttatctttggtagaaatggggaactggagagagaaaanattatgtttcagaagaaaactatagcacacctgttattagattctagccctgaccattgtttttgagtttttattatttncctacaatttggactaaatcctgaattatttcctggctacaagactctaaagaaganctgggttttaattttcttcnatgatgtttttagttggctccctaatggaatagttgttttnttnttgtcgttctggcatacaatctttttgttataatcctatgtgcgttatanttctgctatgtatctctcgttgttttacttcttccgagaaaactaaantcatggtattccgaagactagagatgattcaacaagcgacagcagctatataaatcagtgacttgactggtctcatttttgccaccctgtgatgccatcccaattcggcttttggngctcttaaaattcctcactgagacgtntcctntccccccnnccatgtgggacaggaccatctgggaatgagccttcctggcgacgcgggactaagttcctgaacataaaaggagccaaaaccgtttgagttcatctacgatgctttcttcgaaagatcttgatgaaaaggggggaa
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 ZNF394 3 99.0 Weakly correlated
2 ZNF2 2 99.0 Weakly correlated
3 ZNF766 2 43.0 Weakly correlated
4 ZNF679 2 28.9 Weakly correlated
5 ZNF589 2 28.9 Weakly correlated
6 ZNF584 2 99.0 Weakly correlated
7 ZNF382 2 99.0 Weakly correlated
8 ZNF197 2 99.0 Weakly correlated
9 ZNF175 2 94.0 Weakly correlated
10 ZKSCAN8 2 160.0 Weakly correlated
11 ZNF251 1 94.0 Weakly correlated
12 ZNF257 1 0.0 Weakly correlated
13 ZNF263 1 180.0 Weakly correlated
14 ZFP37 1 99.0 Weakly correlated
15 ZNF441 1 43.0 Weakly correlated
16 ZNF140 1 99.0 Weakly correlated
17 ZNF101 1 43.0 Weakly correlated
18 ZNF597 1 94.0 Weakly correlated
19 ZNF735 1 28.9 Weakly correlated
20 ZFP69B 1 99.0 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 ZNF140 1 99.0 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