ZRdb KZFP & Repeats
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LTR_HERVIP10F

  • Name
    HERVIP10F
  • Repbase
    HERVIP10F
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000186
Description :

HERVIP10F is flanked by LTR10F long terminal repeats; these have 5 bpTSDs. HERVIP10F was an active endogenous retrovirus ~30 Myr ago. Thereare about 20 copies of the HERVIP10F internal sequence present in thehuman genome (not the same as a simply tally of fragmented hits). ThreeORFs are found in the HERVIP10F consensus. ORF1 encodes gagP71A(~504-2216), a 571aa gag-like protein, closely related to gag proteinsencoded by the C-type leukemia retroviruses. ORF2 encodes polIP10F(~2220-5720), an 1167aa polyprotein composed of protease (140aa),reverse transcriptase (517aa), RNase H (140aa) and endonuclease (270aa)domains, respectively. ORF3 encodes envIP10F (~5621-7735), a 705aa andenvelope protein most similar to those from leukemia retroviruses.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
atttgggggctcgtccgggattacattcccctccgggggcggtctccggtcctctctcgtgaggaggcgcgccccgcccccttgtggcggcctcaggggtgagaaatcgggacccacccggtgcgaggaataacccgggctctcagcaacgcggaaagaaactggccggcaacctagcttaaaggatcctcacataccgcggcgacgactctgtgcacagaccaaggaaggagaagccgcgggagccggtaaagtatttccttggtggtcgggaccaaggtaagaaagccgcgggggggcggtgaagtactccttggtcggggtggcttagaggttaaaaagaggcgaganatccccantggngggggattgagcctcacacaaacctccagtagtagaaaaggcaagaaatttccagtgggggaaattgagcctcaccccaaaaggcgagaaatttccagtaagggaaattgagcctcgaaccttaccccaaaaccatcaagatgggaaataccccaagcaagacagggagcaagggggataaagatggtaacaaagatatccccccggatagccccctaggtctcatgctaaaacactggaaggataatgaaaggactaaacataggaaaaagcaacaaatgataaaatattgctgttttatttggactcagggacccatcctcaaaccctcaatcttctggccaaagtttgggtcgaatgaggatgtaatgtgtcagcttctaatccgatatgttaatgataaaagtccagtgtctcaagaagaactaggctatgccctttgttggaggcaaggacctgccctcctttttcccttaaaaacaaatagggaagaacccaatctggcacctcaaaatgaaaagtcagaggagccagctctcatgcctaaagactccagcgcatgggatcccctagaccatcttcccccgctcagtgtccccaatctttcccctcagacagccgctgccgcctcagatcccgttccaaatcccccctctactcacgttatccctcctccttataaccctgactcttgggaattaccgtcccaccagcctgttccctcccaacctaaatacccctctctaaaaggactccagcgtgaggtagaacaatgtaaaaaagatattcagaatttcccatttccctccgtacctaaggggtcagccccgaccctcttccctttgaaagaggtaccacaaggagggggggcgnncgncattggctttgtaaatgctcccttaaccagttcagaagtccggaattttaaaaaggagcttaagccgctactagatgacccttacggagtggcagaccaaattgaccaattcttaggacctcagttatacacttgggtcgagttaatgtccatcttgggcatcctcttttcaggggaagaaaggagtatgattcgtagggctgctatggtagtttgggaacgtgagcaccctcccggtcaaaacgttcctaccgcggaccagaaattccccgcccgagacccccggtgggacaataacaacgcagntcaccgggaaaatatgcaggacctaagggagatgataataaaaggaattcgggaatcagtaccccgaacccaaaatctttctaaagcatttgatatacaacaggaaaaggatgaagggcctatgagattcctagacagactgagggagcaaatgaggcaatatgcaggcctcgatttggangatccccttgggcaaggaatgttaaaactccantttgtcactaaaagttggccagacatttcaaaaaagttacaaaagataganaattgggaagaccgncccctaagtgagcttctcagggaagctcagaaagtatacgtgagaagggacgaagaaaaacagaaacaaaagacaaaacttatgttntccaccttccaacagatggctccaaacccangtacttctaaacagagcttccagggggccagaaactataaagggtccgaaccctcctttaaaggacccnagcctccatctggaggaccaaggccctcgtctaccaggccccctaaagagtatgggggagcaaggtcaaagaatcccagaactgagagggaggaaggacaagataggtgctacagatgtggaagaacaggccacttcaagagagaatgtcccgaactaagaaaggagaaagaagcccttccactcatgactttcgaggaagaataggggggtcaggggctctgtctcttttatcttgagtcccaccaggagcccttgataaatttggaggtgggacctaaacatgagcttatcacctttttagtcgattcaggggctgctcgctcctctgtttgtttccccccatctaatgttgcctnctcctcagaggaacttttagtctccggggtaaaaggggaaggatttaaagcaaaaattttagaaagcacagaagttagataccaggatcgatcagctcatattcagtttttgttaatccctgaagcaggaactaatttactagggagggatttaatgttaaagttaggcataggcctacaagtcagcccaagaggattcctcacctcattaaacctactcaccactgcagatgaaaaatatattaatcctaatgtctggtccaaagaaggaaaccgagggaaactccgagtccctccaatccacatcaagctaaaaacccccggggaagtagtaaggaggaagcaataccccattcccctagagggcaggatagggttgaaacctataattgaaggtcttattaaagatgggcttctcgagccctgtatgtccccttataacaccccaatactgccagtcaagaaatcagacgggtcataccggctggtacaggaccttagagctatcaaccaaatagtccagactacccaccccgttgtccccaatccttacaccattctcagcaagattccatataatcatcaatggtttactgtaatagatttgaaggatgctttttgggcatgtcccctggctgaagatagccgagatatatttgcttttgagtgggaggatccccactcagggcggaaacaacaatatcgatggacagtcttgccccaagggttcacagactcccctaaccttttcggtcaaattttagaacaagtattagaaaaagttgtcgtcccagaacaaatatgcctgctccagtacgtggatgatattcttatatctggtgaagatatagagaaggtagctggcttctctacacatattcttaaccatctgcagttcgaggggctacgagtctcaaaaggaaagcttcagtatgtagagcctgaagttaaatatttaggccacttaataagtgcaggcaagcgaagaatagggcctgaacgagttgagggaatcgtgtccctacccttgcctcaaactaaacaagaactcaggaaatttttagggttagtcggatactgccgcttatggattgactcatatgcactaaacagtaaactnttatatcaaaaacttgcccaggagaagcctgaccgtctcctgtggacttctgaggaagtcgatcaggtcgaggagctgaaagaaaggctcataactgcccctgtcttagccttaccctccctagaaaagccattccacctttttgtcaatgtggacaatggggtagctttaggagtgctnactcaagaacacggaggccgccggcagcccgtggccttcctatcaaaagtcttagacccagtnacccgtggatggcctcaatgcatccaatccgtcgcggctacggcantactagtcgaagaaagcagaaagttaacctttggaggaaaattgacngtaagcacgccccaccaagttagaactatcttaaaccagaaagcagggaggtggcttactgactcaagaatcttaaagtatgaggctattctgttagaaaaagatgatttaacattaaccactgataattcgcttaacccagcaggtttcctaacaggggatccaaatctaaagagagagcacacatgtttagatttaattgattaccatacaaaggtccgaccagacctaggagaaactcccttcaggacgggacgacacttatttatagatggttcctcccgggtgattgagggaaaaagacacaatgggtattcagtaattgatggagaaactctcgnagaaatagagtcaggaaaattgcctaataattggtctgcccaaacgtgtgagctgtttgcactcagccaagccttaaagtacttacagaaccaggaaggaaccatctataccgattctaagtacgcctttggagtggctcatacatttggaaaaatttggactgaacgaggtctcattaatagtaaaggtcaagaccttgttcacaaggagctaatcacccaagtattgaataaccttcagttgccagaagaaatagctattgtccatgtccccggacaccagaaaagcctttcttttgaaagtcgaggaaataacctagcagatcagatagccaaacaggctgccgtttcttctgaaacgcctatttttcacttaactccttaccttcctcctcctaccgtaatccccattttctcttccactgaaaaagagaaactaataaaaataggtgctaaagagaattcagaaggaaaatggatattgccagaccagagagaaatgttatccaaaccccttatgagggaaatcttgtcccaactgcatcaagggacccactgggggccccaagccatgtgtgacgcagttctcagagtttatgggtgtataggaatttataccctggccaaacaggttacagacagttgcttagtatgtaagaaaactaataaacaaactataaaaagattaccccttgggggaaggagtccaggcttaaggccattccaaagtatccagattgattacacagagatgcctccaataggtcgtctaaaatatttactagtgatagtagatcacctcactcactgggtcgaagctattcccttttcaaatgcgacggccaataatgtagttaaggcnttaattgaaaatatagtacccaggtttggactaatagaaaacattgactcagacaatggaacccatttcaccgcacacgtcattaaaaagctancccaagcactagacatnagatgggaataccatactccctggcacccaccttcatcagggagagtagaaagaatgaaccagactctaaagaaccacttaaccaaattagtcttagagactcggttgccatggaccaaatgccttcctattgccctgttgagaatccgaactgccccncggaaagatattggcctntccccttatgagatgctctatggattgccttatttacactccactgctgacattcctacntttgaaacaaaagatcagtttctcagaaattatatacttggtctatcttccactttctcttccctcagaactaaaggtcttttagcacaggcgccacccctggagttcccagtacaccaacatcagcctggggatcacgtcctcatcaaaagctggaaagagggaaagctcgagccggcctgggaaggaccttacctagtgctcctaactaccgaaaccgcagtccggacagcagaaagaggatggacccatcacacccgagtcaagaaagcgccgccccctccagagtcatgggccatngtcccaggggaaaaccctaccaaactaaagctaagaaaagtttaactctctttcatctattctattactctttcttctttcctcgctctatcgctgaccacctngttattaacgtaaccaagtcaatttcgcctcaaactattacatttgatgcttgccttgttataccctgtggagacttgccaagtcaaaggcagctctccacttcagaaaagtacctctgtccttcctggctctcctcagactgggcattagtgaattgggatcatttagtctgggaagatttcgatgaagaccccagtgtcaaccgggagtcttgcccccccgacgcagagcttttatgccgtagttggtccaacgttctgtggaccaccaaagagcaaggatggactgccccaaccagtanttgtaatttcctaaaaccatacattcattttactaaaggaacagccccccccaactgtcagctaaaccagtgcaatccaatacaggttattatctcgancccccaaagttcttccccttctctaagccggttcccttctttaagccgnttctatggtatgggggctgaggtttcaggaacggaccctatnggatcctttgaaatgcgcttcattgctcccccaccgcctgcacctccctctaagccttcttccaaaacctctcacaacgaaaccgtcgttcctcctccacccaatgacaagaccaaggtagctattgtagaagttaaagacttaaaacaaactttggcaattgagacaggatatcaagatgcaaatgcctggttggaatggatcaaatattccgtccgcacgttaaacaaaagcaattgttacgcttgtgcgcacggcaggccagaggcccagattgtcccctttccactagggtggtcctccagtcgaccgggcatgggctgtatggtagctcttttccaggattccacagcctggggtaacgagtcgtgccaagctctctctctgctatatcccgaagtccgacaccctgcgggtcagcccccgagggccatccagcttccgtctcccgacgctaagttcacttcgtgtctctcacgacagggaggaaacttagcgttccttggagacctaaagggatgcagtgagcttaagactttccaagagcttaccaatcagtcagcccttgttcatccccgagcggatgtgtggtggtattgtggtggacctttactggacactctgccaagtaactggagcggcacttgtgctctagtccaattggctatccctttcaccctggcatttcatcaaccagagaaaggaaaaatacgacatcgtaaagcgagagaagccccttatgggtctttcgactctcacgtttatttagacgcaattggagtcccacggggagtaccagatnaatttaaagcccgagatcaaatagctgcaggatttgagtcaatattttggtgggtgacaattaataaaaatgtagattggataaattacatctattacaaccaacagcggtttattaactacactagagatgctgttaaaggaatagctgagcaattagggcctactagccagatggcttgggaaaatagaatagccctagacatgatattagcngaaaaaggnggagtttgcgtcatgattaaaactcaatgttgtaccttcatcccaaacaacaccgcccccgatggaagtataacaaaggcnttgcaaggnctnaccgctctatccaatgagttagccaaaaactcnggggtaaatgacccctttacaggatggctagaaaagtggttcggtaaatggaaaggaatcatagcctcaattcttacttccctcgcagccgtaataggtgtactcattcttgtcgggtgctgtgtcataccatgcatccgtgggctggtgcaaaggctcatagaaacggcacttactaaaacctcccttagctntcctccaccttattcaganaagcttcttcttttagaggatcaagcagaacaacnaagccaagacatgttaaaaaagtttgaagagaaagctgtaagaaaantgcaagaggaggaaat
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 39 15.2 Moderately correlated
2 ZNF506 26 28.9 Highly correlated
3 ZNF382 21 99.0 Weakly correlated
4 ZNF766 21 43.0 Weakly correlated
5 ZNF251 19 94.0 Weakly correlated
6 ZNF534 18 19.6 Moderately correlated
7 ZNF479 13 6.4 Weakly correlated
8 ZNF680 13 28.9 Highly correlated
9 ZNF726 13 28.9 Highly correlated
10 ZFP57 11 87.0 Weakly correlated
11 ZNF257 9 0.0 Weakly correlated
12 ZNF562 8 28.9 Highly correlated
13 ZNF589 7 28.9 Highly correlated
14 ZNF793 7 99.0 Weakly correlated
15 ZNF222 6 43.0 Weakly correlated
16 ZNF701 6 28.9 Highly correlated
17 ZNF394 5 99.0 Weakly correlated
18 ZNF101 5 43.0 Weakly correlated
19 ZNF28 5 28.9 Highly correlated
20 ZNF679 4 28.9 Highly correlated
21 ZIM3 4 87.0 Weakly correlated
22 ZNF2 4 99.0 Weakly correlated
23 ZNF547 4 74.0 Weakly correlated
24 ZNF175 4 94.0 Weakly correlated
25 ZNF230 4 28.9 Highly correlated
26 ZFP69B 3 99.0 Weakly correlated
27 ZNF563 3 28.9 Highly correlated
28 ZFP37 3 99.0 Weakly correlated
29 ZKSCAN1 3 160.0 Weakly correlated
30 ZNF561 3 43.0 Weakly correlated
31 ZNF18 3 160.0 Weakly correlated
32 ZKSCAN8 3 160.0 Weakly correlated
33 ZNF682 3 28.9 Highly correlated
34 ZNF324 3 99.0 Weakly correlated
35 ZNF317 3 99.0 Weakly correlated
36 ZNF263 3 180.0 Weakly correlated
37 ZNF189 3 99.0 Weakly correlated
38 ZNF674 2 99.0 Weakly correlated
39 ZNF610 2 28.9 Highly correlated
40 ZNF823 2 43.0 Weakly correlated
41 ZNF585B 2 99.0 Weakly correlated
42 ZNF584 2 99.0 Weakly correlated
43 ZNF792 2 94.0 Weakly correlated
44 ZNF519 2 19.6 Moderately correlated
45 ZNF549 2 87.0 Weakly correlated
46 ZNF133 2 99.0 Weakly correlated
47 ZNF354A 2 99.0 Weakly correlated
48 ZNF320 2 28.9 Highly correlated
49 ZNF558 2 99.0 Weakly correlated
50 ZNF264 2 99.0 Weakly correlated
51 ZNF705D 1 28.9 Highly correlated
52 ZNF92 1 28.9 Highly correlated
53 ZNF8 1 99.0 Weakly correlated
54 ZNF124 1 43.0 Weakly correlated
55 ZNF813 1 28.9 Highly correlated
56 ZNF169 1 94.0 Weakly correlated
57 ZNF182 1 99.0 Weakly correlated
58 ZNF765 1 8.6 Weakly correlated
59 ZNF735 1 28.9 Highly correlated
60 ZNF727 1 19.6 Moderately correlated
61 ZNF273 1 28.9 Highly correlated
62 ZNF707 1 74.0 Weakly correlated
63 ZNF705B 1 28.9 Highly correlated
64 ZNF333 1 99.0 Weakly correlated
65 ZNF440 1 28.9 Highly correlated
66 ZNF480 1 43.0 Weakly correlated
67 ZNF483 1 99.0 Weakly correlated
68 ZNF597 1 94.0 Weakly correlated
69 ZNF528 1 43.0 Weakly correlated
70 ZNF585A 1 99.0 Weakly correlated
71 ZNF554 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 ZNF723 32 15.2 Moderately correlated
2 ZNF506 22 28.9 Highly correlated
3 ZNF534 15 19.6 Moderately correlated
4 ZNF257 7 0.0 Weakly correlated
5 ZNF251 6 94.0 Weakly correlated
6 ZNF680 6 28.9 Highly correlated
7 ZNF793 5 99.0 Weakly correlated
8 ZNF28 4 28.9 Highly correlated
9 ZNF479 4 6.4 Weakly correlated
10 ZNF766 3 43.0 Weakly correlated
11 ZIM3 2 87.0 Weakly correlated
12 ZNF589 2 28.9 Highly correlated
13 ZNF189 2 99.0 Weakly correlated
14 ZNF2 2 99.0 Weakly correlated
15 ZNF320 1 28.9 Highly correlated
16 ZFP57 1 87.0 Weakly correlated
17 ZNF674 1 99.0 Weakly correlated
18 ZNF101 1 43.0 Weakly correlated
19 ZNF584 1 99.0 Weakly correlated
20 ZNF562 1 28.9 Highly correlated
21 ZNF519 1 19.6 Moderately correlated
22 ZNF483 1 99.0 Weakly correlated
23 ZNF440 1 28.9 Highly correlated
24 ZNF18 1 160.0 Weakly correlated
25 ZNF549 1 87.0 Weakly correlated
26 ZNF169 1 94.0 Weakly correlated
27 ZNF528 1 43.0 Weakly correlated
28 ZNF561 1 43.0 Weakly correlated
29 ZNF701 1 28.9 Highly correlated
30 ZNF222 1 43.0 Weakly correlated
31 ZNF792 1 94.0 Weakly correlated
32 ZNF823 1 43.0 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
1 ZNF257 0.0 Weakly correlated
2 ZNF506 28.9 Highly correlated
3 ZNF534 19.6 Moderately correlated
4 ZNF680 28.9 Highly correlated
5 ZNF723 15.2 Moderately correlated