ZRdb KZFP & Repeats
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LTR_HERVK14C

  • Name
    HERVK14C
  • Repbase
    HERV-K14CI
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000193
Description :

Human HERV-K14 and its variants were examined carefully by Flockerzi etal . HERVK14C is the internal region of an autonomous ERV associatedwith LTR14C long terminal repeats. Features in the consensus from ref: lysine PBS (~8-30), gag (~159-2045), protease (~1865-2851), pol(~2824-5181), env (~5232-7434) and polypyrimidine tract (~7421-7432).
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tctggcgcccaacgcggggctccccgtaatctctacaaataatccggtgaaggaacgccagagcgtggaaagtggaggacgactgacgaaggacgcccgagtacgttttcacttcaagctctacgggtaagtagggcgctcggagaattccagggtaacctcgggaaaatatgggtcaggctgaaagtaagtttgctaattacttaagcctggtgcggcagttattgcgccgcggaggggtaattgtgagtacccaaaatctcacatctttgttccatctcgtagaaaagtattctccttggttcccggaatatggaaccatgaatgtaaaagattgggacaaggtcggatcagacttaaaacgagcacaacaagagggccacgatattcccttctccgcttggtctgtgtggtcggcaattaaaacagcactggagcccttccacactgaggaggaggaggagaagtttcaggatgacatagaaaagtttaataatcaggagtctgatgatcagcaaagtgaaccatcacagtctagtttnaaaaagggggagaaacgggaagntatatatgctaacctccaaaaacttatgaaagaaacagttccacctactgcagaaacagtgccacctactgcgcctttaggggaaggtccggaacggccacccccgcctcagccttatgaatttttggaacgggagcctgagacgcggcttgccgctcccattgttgcacgccccaccattaactatggcgaagggaagcttcaggctcgcccaacagccaattacggtgagggaatgatccaggcttgtccacctgttaattatggtagaggaatgctgcgagccggcccaaatacaaattatggcgcagggacaatccaggcatccattcgccaggcacgagaaatgggggatttggatgcttggcagtttccggtaattatttcnccagctgaggagcccggagaacatgctcaagcacgctgggagccatttccttttaaaatattaaaagacttaaagcaagcaattggacaatatgggccaaattctccttatgttcattccttgttacaatctgtggcttataaccggcgtttaatacctatggattgggagtcattagcccgatccaccctgtccccctctcaatttctccaatttaaaacctggtggacggatgaagcaacaaatcaggcacgcagaaatgctcaagcccaacctcccgttaatatcacatctgatcaattgcttggaatcggacaggcatggggtactntaaatcaacagatggtaatgggtgatgaggctgttgatcagctcagaactatatgcctaagagcctgggaaaaaattcacgaccctggtactacttatccttcttttaactcagttcgacagggtccaagggagccttatccagattttatcgcccgtttgcaagacgcggctcaaaaggctatttcggattctcatgccaggaaagtgatcgttcagctgcttgcttatgaaaatgctaatacagaatgtcaggcagcaattagacctattaagggaaaggcagatctaaatgaggaaaaaactttaagtgaatacattaaagcctgtgatggcattggggggcacttatataaggccagcctccttgctcaggcaatggctggactaagggtaacaaaaaacacacgagtgttccctggatcttgctataattgtggacagataggacatacaaaaagagagtgtacaaagagccaaaaaaggcaaaactcaggaggaaaaagcagggaaccaggtacctgtcccagatgtaaaaaaggaaaacactgggctaatcaatgtcattcaaagtttgataacagcggacagcccttgccgggaaacgganagaggggccagccccgggccccgattcaaaacggggcattcccaattcaggacgggacgtccccgactccaaacggagtgttcccggcccagtctatccctgtacaaatgtacagcaattgtccccctccacagctagaagcggggcagtagatttatgctgtacnaaagccgtatccctccttcctggggagcctcctaggaaggtcccaacgggagtttacggcccattgccaaanggcacggtgggacttatactgggaaggtccagcttaaacttaaagggaattcaagtacatactggagtagtggactctgattgccagggagaaattcaaattgttatctcctccactgttccctggagtgctaatccaggtgacagaatagctcaactgttgcttttaccgtatgttaagttaggagaaagctcagaaaaaagaacaggaggatttggaagcacaaattcagcaggcaaggctgcctattgggtaaatcaagtctctgacaatagacctatttgtacggtcactattcaaggaaaacaatttgagggtctggtcgacacaggagcagacgtgtcgatcatagctctttatcaatggccanaaaactggcccaaacaaaaggccccagtgggtcttgttggggtcggnanngcctcagaagtntntcaaagtacttntattttgcnttgtcnnggnccngatggacaggaaggnacnattcaacctntaattacacccgttcctgtnaacttatgggggagagatctgctncaacaatggggcgcagaaatttcaatccctncnccccggtacggtcaagccagtcaananatgatgnnaaacatggggtatgtccccggaaagggnctaggaaaacaggagacgggcattantgaacccatacaggttactgnaaaaaatgaccgaaaaggattaggntatcatttttaggggcggccactgttgagcctccagancctattcccttaaaatggangacccaaaanccngtttgggtngancagtggccgctnnctcaggaaaaactgggggccttacaggaattagtcaaagaacaattaganaaaggacacatngagcccacattttctccntggaattcnccagtgtttgtaatnaagaaaaaatccggcagatggcgnatgctaaccgacttacgagccgtcaatgcagtcatncaaccnatgggggcnctgcagccagggctgccntcccccgccatgattcctagagactggccnttaatagttatagatttgaaggactgcttctttactattcctctagcagagccngattttgaaaaatttgcttttactattcctgctatgaacaacaaggaaccngcagccagntatcattggaaagtnttgccgcagggcatgttgaatagtccnacnatttgtcaaacttntgtggggnaggctattcaacctgtnagagatcagtttccagattcntatatcattcattatatggatgacatattntgtgcggccgaaactcgagaccaacttatccagtgttattcacatttacagaaggcggtngccgacgctggattgntcatagcnccngataaaattcaaacgnctactcctttccaatatttgggaatgcaggttcaggaaagggcaattaagccncaaaaggttcaaattcgaaaagactctctgaaaactttaaatgattttcaaaaattattaggggatattaattggattcgacctactttaggcattcctacctatgccatgtctaatctgttctctatcttaagaggagatcctgntctcaatagtaaacgagaactgactccngaggctgacaaagaattacaantgattgaagaaaaaatncancaggcccaggtnaatagaatagacccaagtttaccattacagttcntcgttttccctactcnncattcncctacaggngttattgttcagagcgaggacttagtngaatggtcttttctncctcacaatactgttagaacactcacngtntacttggatcaaatngctatcttgattgggcaagctcgccttagagttgttaaacttcgtggntnngatccngataaaattatngttccnatgaataaaaatcagattcggcaagcctttgttaattcggtcanttggcaaatnnatttagctggcttcgtnggnattcttgataatcattatccnaaaannaaantntttcagtttttaaaactaacnacttggattcttccnaaaattaccnanngtgcnccattggaaggngcngtgactgtntttacngatggntctagtaatggaaaagcngcttatgcgggaccnaaagacagagttattcaaactgactttcantcggcncaaagggctgaattacaggcagttatagctgtgttagaagactttaagcagcctgtnaatattgtctctgattcngcntatgtngtncangccactcaatacatngaaactgcnctcattaaatatcttgcggatgaacaactctatcagctgttttcttctttacaaaaggcagtgcgtgatcgctattttcctttctatattactcacattcgagcacacactaatcttcccgggacccttgtaagggcnaacgatcaagctgatttactagtttccactgcgcttactaatgcccaagattttcacnccttaacncatgttaatgcngcaggactcaaacanaaatatcgnattacntggaaacaggcnaaggncattgtncaacattgccctnngtgccaggtgctacaactgccacatcaagggactggngttaacccncgaggattggcncctaatncgctntggcaaatggacgtnacccatgtacctncatttgggaaactntcntacgtccatgtnactgtagataccttttctcattttgtntgggcnacttgccaaacaggngaggcngctgctcgtgttaaaagacatttgctttcctgtttcgcngtcatgggcattccacaaaanattaaaacngacaatggcccaggctacnntagtaaanctttanangcgttccttcaacaatggnacattaaacacantactggnatcccctataattctcaaggncaagccattgttgaacgagctaatcgaaccttaaaanctcaattacaaaaacaaaagacagaaggggggaaccagagaatactcnactccncatatgcagctacaattggctcttattatcactttaaattttttgaacctgcctagagatcaggttacnacggcagcngaacagcatttnacagggcaaaaaataaatccncatgaaggaaaacgngtntggtggaaggacgtcagaacnaaaacctgggaaanaggcaaaatnatnacatggggtagaggntttgcttgtgtctcnccaggagagaatcagcttcctgtctgggtacccacaagacatctnaagctgtgccatgagccagaatccaaggaagaggaaaagacctcggaacgtccctgcacccccagttcatcagatggctcagatgaacatctctgttgagcagatggaaaccagtaanactcgccaagcaactccaccgacctgggggcagatnaagaggctggctcanatngcagaagagaacctgaggtcncagaacaagccgctgacnaccagtaatctaatggtagctatgatggcggtaatcnccntggcggtgagtctccccgcagctgaggcagatcaaaattacacttattgggcntacgttccnttcccnccactnattnggcctgtnacntggntggaccccccngtggaggtntacgctaatgatagtgtctggatgcctggnccnacagataaccgaggccctactcanccagaggaggaaggaatgttaatgaatgtttccatnggttatnantntcctcccatctgcctggggccggcagcnggatgtttaaattatgataaacaaagttggatggtttatgtccctgcacataatggatcaaaagcctctattcatgcaatcagtggaagaacatttcaatctttggacactattaaataccttgagcacggctatgttatgacacatcgccagattaataaatttaaacctaataagaagccctgccctaggcaggccactaaatggtctgaaaagctagaggtgctaacttgggaagattgtattgcaaacagcgctgcggtgctgcaaaataattcctatggaatcgtcattgattgggcccctaagggncactttgcagtaaattgcactggacagngcgaagattgtngagagactccttttgcaaacgactacccagataatgcaccaaaattatatagaagaattgaaacaaattnccctattaagtgggagganaacggtatggctcctccaagcccaaaaatgattgatccnattataagnccagaacatccagaattgtggaaattagcgatggctcaaaccccaattcggatttgggaaggagaatataaaacagagacccatagtaaaaaacttcgatttgttntagccatgacctctaatcagacggtcccgntgcagagttgtgttaaacctccttttatgttggcagtgggaaanattaatatcctacctgactctcaaaccgtatcatgcctcaactgtcatctttttacctgcgttaattctacctttaataaagatnatagtattttantggttagagcccgagaaggagtttggatacctgtttccctnaatagaccttgggaggcctctccctccatncatattatcactgaagtnctaaaaggaatncttaanagatcnaagagattcatntttactttaatngctgtnatcatgggcctnattgctgtcacagctactgccgcngcngctggngttgctttgcactcntctgttcaaacngcggactttgtngataattggcagaaaaattctnctaagctntggaattcccaaagccaaatagatcaaaaattggcnaatcaaattaatgatctccgncaaacngtaatttggatgggagatcggatnatgagtttggaacatagaatncaaatgcaatgtgattggaatacttctgatttttgtattactcctcgctcttataatganactgaacaccantgggaaanggttagacgncacctanaaggnaaagaaganaatttaacnttggatattgcnaaactgaaagaacaagtttttgaagcntctcaggctcatctnaccctgntgcctggagctganattcttganggagccgctgatggnctntctantatcaatcctttaaagtggattaagaccattggaggntcnacgattgcaaattttattttggtttgtgtctgtttgtgctgtttgtttttagtctgcagatgcggacggcgcctcgggagagaagccagacaccgtgaacgagccatgatagcnatggcggttattaataaaaaaaaattaatagagacaaaaaagggggaca
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 ZNF28 15 28.9 Highly correlated
2 ZNF816 10 28.9 Highly correlated
3 ZNF320 10 28.9 Highly correlated
4 ZNF766 5 43.0 Weakly correlated
5 ZNF723 5 15.2 Moderately correlated
6 ZNF587 5 28.9 Highly correlated
7 ZNF382 5 99.0 Weakly correlated
8 ZNF417 4 28.9 Highly correlated
9 ZNF92 4 28.9 Highly correlated
10 ZIM3 4 87.0 Weakly correlated
11 ZNF18 3 160.0 Weakly correlated
12 ZNF589 3 28.9 Highly correlated
13 ZFP57 3 87.0 Weakly correlated
14 ZNF263 2 180.0 Weakly correlated
15 ZNF317 2 99.0 Weakly correlated
16 ZNF534 2 19.6 Moderately correlated
17 ZNF479 2 6.4 Weakly correlated
18 ZNF2 2 99.0 Weakly correlated
19 ZNF485 1 94.0 Weakly correlated
20 ZNF549 1 87.0 Weakly correlated
21 ZNF274 1 99.0 Weakly correlated
22 ZNF679 1 28.9 Highly correlated
23 ZNF700 1 28.9 Highly correlated
24 ZNF701 1 28.9 Highly correlated
25 ZNF324 1 99.0 Weakly correlated
26 ZNF175 1 94.0 Weakly correlated
27 ZKSCAN1 1 160.0 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 ZNF587 5 28.9 Highly correlated
2 ZNF723 5 15.2 Moderately correlated
3 ZNF816 5 28.9 Highly correlated
4 ZNF417 4 28.9 Highly correlated
5 ZIM3 3 87.0 Weakly correlated
6 ZNF28 3 28.9 Highly correlated
7 ZFP57 2 87.0 Weakly correlated
8 ZNF534 2 19.6 Moderately correlated
9 ZNF320 1 28.9 Highly correlated
10 ZNF766 1 43.0 Weakly correlated
11 ZNF479 1 6.4 Weakly correlated
12 ZNF2 1 99.0 Weakly correlated
13 ZNF485 1 94.0 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