ZRdb KZFP & Repeats
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LTR_PRIMAX-INT

  • Name
    PRIMAX-INT
  • Repbase
    PRIMAX_I
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0001055
Description :

PRIMAX-int is the internal part of the PRIMAX endogenous retrovirus.PRIMAX is related to the Class I retroviruses, including leukemiaviruses.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
aaaaggctgctgaatcttcttctccctcagaagcttctccttgacctgcctttccttcctctttaaccttcttttccttcttcctcctcctctggcccctgctgttctggctctgttcagcaagcagccagtgtctggtaggggagaacctgccttagcttaacaaccatggtcaaaggcanaactcaagggcatgattaaggaactccctgaccccntcaggaccctgctggntttnccgggaatttgaattaaatattcgagcttatgaccctggttttctgatttatatcaactagttcacatgttagtttcagaaagtaaggctaaagattggatagataaagcccgttggagaaaccccctagaggatttccataaatgttcanaagaagaccgcaggaatgcccgcganactgcaaaggctctacttgcaaccattcctttagtcttctaaaaggtagtcgactggaataaaatacaacgatgtcaaaaanatcgatgagtcagtaatgtcatactttgaaagatttgaaaagacttttagacaatattcaggcttatctgaggcgagttatgctaatcatcaaaataatactctcaactccaactttataaacgggctanataaaaaattagcactaatagtaaagagacaatgccctagttgggctacttctcaaactcacgatttgnttaatcttgccgancagttgtctcgtactttaactaaagaagaaaaaaagnnaaactanncgaacagtanagacagataaaatattnnaataaatctccgaacaaatctaaccccccaantgcaattactgcaaaaaaatactnnccactttnnacanaaaaagttgctgnaaantgnnncggaaagaacggcaacattaaaanaggaaaanagcggtgctncaagaaacttaaagggannnnnnnnnnnncgnnnaataacgntccggaagaaatagaaattattttaaatggagaacaataccaagccctcactgatactngagcaacnttatttgtaataaatccaccttattacaaagtctcattcctcggagtaaacacttggtccaaatggtaggtgtcacaaatactcctatatcagcanacaagtctcancctgtaacttttcaactaggtntcttacaagggaattcatgttttccttttggttccatcagcccccatcnatcngataggaaganacttcttggnnnnnanctatataatacccatatttctttctcccaaaaggggaactgtatttagaattagatggtatggatgacanaacagagttancagacacaagcagatttttcgaaatctaatccaattgctatccatctcgccatcgagnggacactgaattattaagcaatgaagaattacaaaacctnaactaaaggtagtacccgatcgattgtggtcaaagtcctccactgatacaggaantattgtttcggctaccccaataaaaattcaaatngattcatcnaaaccttttccaaatatcagacaatatcccttgaganctgaagccntngaaggantnaaacctataattnnagattatataaaaagaggactgatcattccntgtaccagcccctgtaatactccaatcctnccggtaaaaaaaccnaatggnngaggatggagatttgttcaggatctnagagcaatnaacaanatngtnattccncgncntccagtggtnccaaacccncatacattnttcactgccatcccatctaangcngaattnctcnctttacngtnatagacctntgtagtgcnttctttagcgtncctntngacaaagacagtcaatntctntttgccttcacntgggaaaacaaacaatatacctggacngtcatgccccagggatttactgaaagccccncttacttttcacaaatattaaaancggacttnnnnagacgtcgatttccctgagaaatccgccttaatncaatatgtagatgatctncttctntgctcngacgntaagnangcttgtgtagaagacgnnatttacttcttacagcaactngcanaaaaaggncacaaagtttcnagagaaaaacttcaattttgtcaagaacangtnaantatttaggtcacctgatatctanagaaggactttctntcgnnccnganagaataaaaggcattcaagcttttctnccgccnanaacnaaaagacagctaagaggnttttngggacttgcaggatactgcagaanctgggtnccaaatttttccttaatggctcanccnttgtatgcgctcttaaaacaaggcgtaccagagcctntancttggnnngaaganagtcagctagcnttagaaatgannaaaantggccttacaaacaccccagctttgggacntccaaattataacattccattttcnttatttgtncatgaaagtgacggnaacgcctttaggngtcctnactcaagaacagagancaaaataggcccatngnntattatagcctacaattagacccagtagctagagnatnnccancttgtttgagagccgtancagccgctgctntgttagttaaggcaactgaagaaattgtnangggaatancccttactatctncgtcccncatnctgtggaagcnttgctaaattcncaccatactcagcatttttcagcnagcagactggcttcntatgaaatcctgctcctntcnncttctcatatcaccatctctaaatgtaacaatctnaaccctgcaactctnctgccttcgccttcagatgaaacgccgcacgactgcataaccttaactgatcaacttttnnctcctnggacagatttacaaganactccntttannaatgctgatattntttggtttacagatggatcttacttaaaggatgaanntggaanataccgngcaggntacgctatagtatctttaactgaagaaatngaaagtgcctntcttccgnaagccanttcagctcaacaagcngaactantagcnttnactngggcctgtcacttggcaaaaggaanaactgctaatatttatacggacagtagatatgcttttggggtggtccatgattttggaatgctatggaaacaaagagggttcttnacctcttctggtcaatccatnaaaaatggacatcntattncacaactactagaagccatgttactaccaaagtcactggccattattaaaattccnggtcattccaaatcagatactccagaaagcagaggaaatcagctagctgataangtagcaaagagagctgctctaaacgcatctaaacaanaaaaccaacctatgttaacttttaaggaagnacctgaatttgacanaaaattagctcaattcagaaccctaaaatcaaaacaaaaaggctgggaaacgaaagggggaatatactccccaaaagatgaggtatggtatgggccaaacgacttgcccgtacttcctgctgaattatagtcattattttaacttatgtgcatgatttaattcacttgagtcctgncaaaatggccgcnngggggaagcannattntcggggncnctctccnaccanngcccacngggtatacnancnncatnanatttgcccaaagtacaatccgggaaaaacattacanacttccnaaggacgcttcccaccacnngatgnnccntttggngcatggcancnagatttcgttcggttgccaccntctcaagggtaccantatattcttgtaatggttcgcatnttttctcgntgaatngcggcncttcccatgcaggagancngctncnccggcagcggntngaattcnntggggnannnnttnttctnncntggggaatncctncggaactttccagcgataanggaactcattttactgggcaaataattaaatnagtatntaangtatggctgnttntncgacactnccattgtncntatcaccctcngtcttctggantggtngaatgnacaaatggnataattaaaactnaattgncaaaattaacagaatnatttgnattgccttggccaaaggttctaccattggct
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 3 15.2 Weakly correlated
2 ZNF157 2 99.0 Weakly correlated
3 ZNF485 2 94.0 Weakly correlated
4 ZNF101 1 43.0 Weakly correlated
5 ZNF471 1 94.0 Weakly correlated
6 ZNF506 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 ZNF723 3 15.2 Weakly correlated
2 ZNF157 1 99.0 Weakly correlated
3 ZNF471 1 94.0 Weakly correlated
4 ZNF506 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