ZRdb KZFP & Repeats
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LTR_HERVE_A

  • Name
    HERVE_A
  • Repbase
    HERVE_a
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000175
Description :

ORF boundaries are: gag (588-2147), pol (2148-5738), env (5698-7824).
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tttcttggttccctgaccgggaagcgaggtgattgacggacggtcgaggcagccccttaggcggcttaggcctgccctgtggagcatccctgcgggggactccggccagcccgagcgacgcggatcctgagagcgctcccgggtaggcanttgccccggtggaacgcctcgccagagcagcgcgtggcaggcccccgtggaggatcaacgcagtggctgaacaccgggaaggaactggcacttggagtccggacatctgaaacttggtaagactggtctttggaacttgcccactccatttgagtggaagcgtggcctgatcacccacggcgtgcctttatcggcactttggttttngtttttgacttggcttgaattgcttgatactttggttttggttttgacctggcttggatttcttgatactctgattttggttttgattctggtttggtgtaaactgtaaaagtgtgtgtgtgccctttttacccgttctttgttttgtggtgtgcgtgtggtgtgagcgtggtgttttgtctcgaggaaacatgggtcaggcacaaagtaagcccaccccactaggaactatgttgaaaaatttcaaaaagggatttaagggagactatggagtcactatgacaccaggaaaacttagaactttgtgtgagatagactggccagcattagaggtgggttggccatcagaaggaagcctggacaggtcccttgtctcgaaggtatggcacagggtaacctgtaagccagggcacccagatcagttcccgtatatagattcttggttacagctagttttggaccccccacagtggttaagaggacaggcagcagcagtactagtagcaaagggacagttagttaaggaaggttctcgctccacccgccgagggaagtcggcaccaaaagtcctgtccgacccaacgccagaagaatcatggcaggaattggtaccagcagtgccccctccttatcgagaggaagggctccccactcctgagcccacagcacctacacctccaccagatanccacacccctagaccacccagagtagacaaaagaggaagtgaagccgcgggagaaactcctcccttggcagctcgcttacggcccaagactggaatccaaatgcccctgagagagcagcgatatactggggtagatgaggacggacacatggtggaaaggcgtgcctttgtgtatcaacctttcacctctgctgacctcctcaattggaaaaataatactccatcttacaccgaaaagcctcaagctttaattgacttgctccaaactattatacagactcataatcctacttgggctgattgccaccagctgctcatgtacctctttaatacagatgaaaggcgaagggtgctccaggcggcaactaagtggctagaggagcacgtcccagccgattaccaaaacccccaagaatatataagaattcagctgccaggaacagacccccaatgggacccgaacgagggaccagacatggagaggctaagacggtaccgtgaggcattaatagaaggtctaaagaaaggggctcaaaaggctacaaatgtaaataaggtctctgaggtcatccaaggaaaagaggagagtccagcgcaattctatgaaagactgtgtgaggcttaccgtatgtacactccttttgatccagatagccctgaaaatcagcgcatgattaacatggccttagttagtcaaagcgcggaagatatcaggagaaaattgcagaaacaggctgggtttgcgggtatgaatacctcgcagttactggaaatagccaatcaagtgtttgtgaatagagatgcaacaagccgcagagaaagccgtaaggaaggcgaacgccaggccaggcgaaacgccgacttactggccgcggccattaggggaattcccccgaaaggagagggaaaggggggttccgggaagaatacccagtctaatcgcccacgcttgcaacgtaaccaatgcgcctattgtaaggaaataggacattggaaagataagtgtccccaactgaaggaaaagcaaggtgattcggaacaaaagacctcagataaagacgagggagctttgttcaatctggctgaagggctactggactgaaggggaccgggctcaagcgcccccaaggagcccacggtcaggattacaattgggggcaaggacattaagtttttggtcgatactggtgctgaacattcagtagtgaccaccccggtcgcccccttatccaagaaaaccattgatataatcggagcaacaggagtttccactaagcaggctttctgtctaccgcggacctgctcggtggggggacatgaaatagttcaccagttcttgtacatgcctgactgtcccttgcccttgctgggaagagacttgcttagcaagctgagagccaccatctcctttacaaaacagggctctttacagctaaagttaccgggaacaggagttatcatggcccttacggtcccccgggaagaagaatggagactttttctaaccgagccaggccaagagataaaaccggctctagctaagcgatggccccgagtatgggcggaggataatcctccgggactggcggtcaaccaagcccccgtactcatagaagttaagcctggggcccaaccaattagacaaaagcagtatccggttcccagagaagctctcgaaggaatccaggttcatctcaggcgcttgaaagcctntggaattatagttccttgccagtctccatggaacacccccctcctgcctgtccctaagccagggaccaaggactaccggccagtacaggacttgcgcttggtcaaccaagctacagtgactctgcacccaacagttcctaacccttacacattgttagggctgctgccggctgaggacagctggtttacctgtctggacttaaaagatgccttctttagcatcagactagctcctgagagccagaagctgtttgcctttcagtgggaagatccggagtcaggtgtcactactcagtacacttggacccggcttccccaagggttcaagaactcccctactatcttcggggaggccctggctcgagacctgcaaaagtttcctgctaaagacctaggctgcgtcttgctcctgtacgtggacgaccttctgctgggacactccacggcagtcgggtgcgcaaaagggacggatgccctgcttcggcacctggaggactgtgggtataaggtgtccaagaagaaagctcagatctgcagacagcaggtacgctacctgggattcactattcggaaaggggagcgcagcctggggtcagaaagaaagcaggtcatctgcagcctaccggaacctaaaaccagaaggcaagtaagggaattcctaggagctgtggggttttgcagattatggattccaaactttgcagtgctagccaaacctttgtacggggttacaaaggggggcgaccgggagccttttgaatgggggcctctacaacagcaagccttttgtaagttaaaggaaaaacttatgtcggccccagccctaggactaccagatttgacaaagccctttacactctatgtgtcagaaagagaaaaaatggcagttggagttttaacccagactgtggggccctggccaaggccagtggcctatctctcaaaacaactagatggggtttccaaaggctggccnccatgtctaagggccctggcagcaacagccctgttagcacaagaagcagataaactaacccttgggcaaaacctgaatataaaggccccccatgctgtggtaactttgatgaataccaaaggacatcattggctaacaaatgctagattaaccaagtaccaaagcttgctatgtgaaaatccccgcataaccattgaagtctgtaacaccctaaatcccgccaccctgctcccagtatcagagagcccggtcgagcataactgtgtagaggtgttggactcagtctattctagcagacctgaccttcgggaccagccatgggcatcagtagactgggagttatacgtggacgggagcagcttcatcaacccacaaggagaaagatgtgcaggatatgcggtggtaactttggatgctgtcattgaagccaaaccgttgccacagggcacttcagcccagaaggctgagctcattgctttaactcgggctctagaactcagtgaaggtaagactgtaaacatctacactgactctcgatatgcctttctaaccctccaagtgcatggagcattatataaggaaaagggcctgttaaactctgggggaaaggacataaaatatcaacaagaaattctacaattattagaggcagtgtggaaacctcagaaggtggcagtcatgcactgcaggggacaccagcgagcctccacctcagtggccttaggaaactcccgagctgactcagaagctcgaaaagcagcatctaccccttaccgggcatcggtagcagcccccttactccctcaaacacctgacctggtacctacctattctaaggaagaaaaagacttcttccacgcagaaggggggcaagtaataaaaggaggatggatcagactgccagatgggagggtagctgtgccgcagttgctgggagccacagtcgtactggccgtgcacgaaaccactcatctaggtcaagagtcacttgaaaagttgttaggccggtacttctacatctcacacttgccagcccttgccaaagcagtagcacaacggtgcgttacttgccgacagcacaatgcgaggcaaggccccactgttccgcccggcatacaagcttatggagcggctccttttgaggatcttcaggtggatttcacagaaatgccgaaatgtggaggtaacaagtatttgctggttcttgtgtgtacttactctgggtgggtggaggcttatccaacacgaactgaaaaggcctacgaggtaacccgtgtgcttctccgagatcttattcctaggtttggactgcccttacgaatcggctcagataacgggccggcgtttgtggctgacttggtacagaagacagcaaaggcattaggaatcacttggaagctacatgccgcctaccgacctcagagttccggaaaggtggagcgaatgaatcggactatcaaaaatagtttagggaaagtatgtcaggaaacaggattaaagtggatacaggcccttcctatggtattgtttaaaattagatgcaccccttctaagaaaacaggatactccccttatgaaatactgtatcataggcctcctcctatactacgggggcttccaggcactccccgagagttaggtgaaattgaattacagcgacagctacaggctttaggaaaaattacacagacaatctcaacttgggtaaatgagaggtgtcccgtcagcttattctccccagttcaccctttctctccaggtgatcgcgtgtggatcaaggactggaacgtagcccctttgcggccacggtggaaaggacctcagaccgtcatcctgaccacccccacggctgtaaaggtagaaggaatcccagcctggatccaccacagccgcgtgaaacctgcagccgctgaaacctgggaggcgaaaccgagcccggacaacccctgcaaagtgactctgaggaggacgacaagccctgctccagtcacacccggaagctgactggtctacgcacggccgaagcatgaggagaatcatcgtgggactcattttccttataatttggacttgtatagtaaaaacttccactgattttccccacacggaggactgctctcagtgtatacatcaggttaccgaggtagggcaacaagttaaaacaatctttctgttctatagttactatgaatgcctaggaactttaaaaggaacatgtttatataatgacactcagtacaaggtatgtagcccaggaaacgaccggccagatgtgtgttatgacccctctgagcctcccatgtccacagtttttgaaataagattaaggactgaagactggtggggactcataaatgatacaagtaaagtattagccagaacagaagaaaaaggggtgcccaaacgcataatcttgaaatttgatgcctgtgctgtcattaatagcaataagttaggaaggggatgtggctcttttaattgggaaaaaggctatatgaccgaaaataagtacatttgtcatgaattaggactgtgtggaaatgaatgtggatactggtcttgtgtcatttgggccacttggataaaaaatgaaaaggatccagtccgccttcagaaaggaaaaagtggcccttcctgtactaagggacaatgtaaccccttagagctagtaataaccaatccccttgatcctcgctggaaaaaaggggagcgtgtgaccttaggaatcgatggggccggactggatcctcgagtaaatatcttagttcgaggagaagtttacaaacgctctcctgagccagtgtttcaaactttctatgatgaactaaatgtgccagtaccagaaattccaggaaaaacaagaaatttgtttttgcaattagccgagcatgtagcccagtctctcaatgtcacttcatgttatgtatgtggaggaactgtaacgggagatcaatggccatgggaagcccgagaattagtacctacagacccagttcctgatgaattcccggctcaaaagaatcaccctgataatttctgggtcctaaaagcctcaattattggacaatattgcatagctagagaaggaaaagaattcactcaccccgtaggacgacttagttgtctgggacagaaactgtataatggtaccacaaaaacagtcacttggtggagttcaaatcacacagagaggaatccatttagtaaattcccaaagttgcaaaccgtgtggacccacccggagtcccaccgggactggacagcccccactggattatactggatatgtgggcatagagcttacgccaaattacccgaccagtgggcaggtagttgtgttattggcactattaaaccatctttcttcctactgcccataaaaacaggcgaactcctgggcttccctgtctatgcttcccgcgaaaagagaagcatagctataggaaattggaaagatgatgaatggccccctgagagaatcatacaatattatgggcctgctacttgggcacaagacggctcgtggggataccggacccccatttacatgctcaaccgaatcatacggttacaagctgtcttagaaataatcactaataaaaccggcagagccttgactattctggcccggcaagaaactcagatgagaaatgctatctatcaaaatagattggctctcgactacttgctagcagctgaaggaggggtctgtgggaaatttaaccttactaattgctgtctacacatagatgatcaagggcaagtagttgaagacatagttagagatatgacaaaactggcacatgtgcccgtgcaagtgtggcatggatttgatcctggggccatgtttggaaaatggttcccagcgctaggaggatttaaaactcttataataggagttataatagtaataggaacctgcttactgctcccttgtttgctacctgtacttcttcaaatgataaaaagcttcatcgctaccttagttcaccaaaatgcttcagcacaagtgtactatatgaatcactatcgatctgtcttgcaagaagacatgggtagtgaggatgaaagtgagaactcccactantgagtgaggttctcaaagggggggaa
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 ZNF479 13 6.4 Weakly correlated
2 ZNF723 10 15.2 Moderately correlated
3 ZNF679 10 28.9 Highly correlated
4 ZNF813 9 28.9 Highly correlated
5 ZNF793 7 99.0 Weakly correlated
6 ZNF263 7 180.0 Weakly correlated
7 ZNF274 6 99.0 Weakly correlated
8 ZNF534 5 19.6 Moderately correlated
9 ZNF317 5 99.0 Weakly correlated
10 ZNF671 5 94.0 Weakly correlated
11 ZFP57 3 87.0 Weakly correlated
12 ZNF506 3 28.9 Highly correlated
13 ZNF485 3 94.0 Weakly correlated
14 ZNF382 3 99.0 Weakly correlated
15 ZNF28 3 28.9 Highly correlated
16 ZNF680 3 28.9 Highly correlated
17 ZNF701 3 28.9 Highly correlated
18 ZNF182 3 99.0 Weakly correlated
19 ZIM3 3 87.0 Weakly correlated
20 ZNF611 2 19.6 Moderately correlated
21 ZNF597 2 94.0 Weakly correlated
22 ZNF528 2 43.0 Weakly correlated
23 ZNF766 2 43.0 Weakly correlated
24 ZFP69 2 99.0 Weakly correlated
25 ZNF101 2 43.0 Weakly correlated
26 ZNF18 2 160.0 Weakly correlated
27 ZKSCAN2 1 180.0 Weakly correlated
28 ZNF431 1 28.9 Highly correlated
29 ZNF124 1 43.0 Weakly correlated
30 ZNF747 1 43.0 Weakly correlated
31 ZNF141 1 43.0 Weakly correlated
32 ZNF716 1 19.6 Moderately correlated
33 ZNF705A 1 28.9 Highly correlated
34 ZNF189 1 99.0 Weakly correlated
35 ZNF197 1 99.0 Weakly correlated
36 ZNF677 1 99.0 Weakly correlated
37 ZNF230 1 28.9 Highly correlated
38 ZNF257 1 0.0 Weakly correlated
39 ZNF337 1 43.0 Weakly correlated
40 ZNF589 1 28.9 Highly correlated
41 ZNF425 1 94.0 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 ZNF723 9 15.2 Moderately correlated
2 ZNF679 7 28.9 Highly correlated
3 ZNF263 6 180.0 Weakly correlated
4 ZNF793 4 99.0 Weakly correlated
5 ZNF479 2 6.4 Weakly correlated
6 ZNF18 2 160.0 Weakly correlated
7 ZNF485 2 94.0 Weakly correlated
8 ZNF671 2 94.0 Weakly correlated
9 ZFP69 1 99.0 Weakly correlated
10 ZIM3 1 87.0 Weakly correlated
11 ZNF680 1 28.9 Highly correlated
12 ZNF611 1 19.6 Moderately correlated
13 ZNF677 1 99.0 Weakly correlated
14 ZNF257 1 0.0 Weakly correlated
15 ZNF28 1 28.9 Highly 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
1 ZNF263 180.0 Weakly correlated
2 ZNF679 28.9 Highly correlated