ZRdb KZFP & Repeats
...

LTR_HERVIP10FH

  • Name
    HERVIP10FH
  • Repbase
    HERVIP10FH
  • Type
    LTR
  • Emergence
    28.9 Mya
  • Dfam Id
    DF0000187
Description :

HERVIP10FH is flanked by LTR10F long terminal repeats; these have 4 bpTSDs. HERVIP10FH derives from an endogenous retrovirus that was activeabout 30 Myr ago. HERVIP10FH lacks functional gag and pol proteins,containing an env protein only. Presumably, intragenomicproliferation of HERVIP1OFH resulted from its interactions with theautonomous HERVIP1F retrovirus.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
atttgggggctcgcccgngattacattcccctccgggggcggtctctggttctctctcgtgaggaggcgcgccccgcccccttgtggcggcctcaggggtgagaaatcgagacccacccagtgcgaggaataacccgagctctcagcaacgcggaaagaaactggccagcaacctagcttaaaggatcctcacatactgcggcgacgactctgtgcacagaccaaggaaggagaagccgcgggagccggtaaagtacttccttggtggtcgggactaaggaaaaagccgcggggcggtaaagcattccttggttaggacataccaaggagagagaaaccgcaggggcggtaaagcattccttagtcgggactagggaaagaaagccgcagggggcggtgaagtattccttagtcgggatgtcttggagntcaaaaagaggtgagaaatccccattggggggagttgaacctcagaaagaggtgagaaatccccatgggggggggttgaacctcagaaagaggtgagaaatccccatggggggcggggggttgaacctcagaaagaggtgagaaatccccatggggggggttgaacctcagaaagaggtgagaaatccccatggggggggttgaacctcacacaaacctccggtagtaagaaaaatattcagaactcccctttcctttcttctcgggggaagaaagagtagctccactcccgccggtccctcccctaggggaaggggaaggagaggggagaacagcagcataagcggctggcagaggcagggaaagaccagcagagaggaaagagagaagagagagagagagagagaggaagagagagagagagaaagagagagagagggagagagagagacaaagagggagtcaaagagagagagaggcagagagaggaagagacagagagacaaagagggagtcagagagagagagagagacagaaagtcaaagagagaaagaaagagagagatagaagtagtaaagaaaaaacagtgtaccctattcctttaaaagccagggtaaatttaaaacctataattgataattgaaggtcttctccgtgaccctataacactccaataccaccttgttgtcagtgtaaacaagggcgtagcccgaaagcactgaggccactgacaacccgtagccttcctatcaaaaatccttaacccagtaacccgcggatggcccaaatgcattcaatctgtagcggcaactgctttgctaacagaagaaagtagaaaaataacttttagaggaaacctcattgtgagcacacctcaccagttcagaactatcctaagtcgaaaaaaaaaaaaaaaaaagcaaaaaggtagcttactgactcaaaaatcttaaagtatggggctattctgttagaaaaagatgatttaacattaaccactgaaaattcccttaacccagcaggtttcctaacaggggatctaaatcttaattaccatacaaaggtccgaccagacctaggaggaactcccttcaggacaggacgatagatggttcctcccgggtgattgagggaaaaagacacaatgggtattcagtaantgatagggaaactcttgtagaagcagagttaggaaaattgcctaataattggtctgctcaaacgtgcgagctgtttgcactcagccaagccttaaagtacttacagaaccaggaaggagccatctataccaattctaagttaatttggactaaacgaggtcttattaatagcaaaggataattgaaatcccaaacttacaaggttttcaacaaaagtaaagtttgctaaaagttaacagtgtaacatgtattatcctaacttctaatcttgtggccttaggcagtctagtccacagacatgaaggaagttcgctttggaaaagaatggttatcatctttgagaaaaaaaaaggagggggggggagaatttatgtaaaaaggaatgttatatggtaaattcttgtcctaaaataaattaactggttgtttaaagaaagggatgtttgcaacaagtcagaaagttgaggcatgtcgaagaattgtctgtgaaagtcgtgaaaaaaaagttataaaagggaatttatgcaagaaatgttgtataatttaaaagtaattaggcctcctgaatgtaaaactattgaagaaacagtttatgtgcaaggtgtgtaaggaaagtaaaatatacttttggtaaaaggattataaggaggcataagaatgtggatttttacctacattaaaaggttaaaaaattttttgttttaaaggtttaagcaagttttgaaacgttaattgtaaaggaaattctgtgtgtaaacatattggctaaagttaaaggggtatcatccagtttttctgtgaactggacattaaaataaaagcacaacgggtttttcttaaagcactaacctgctctttaacaaaaattataaaaggttaaaaagagtctataaaaatcttaccttatggtcagacattaaaattggataaatatgtctacaaggttttattaaaattgagtttaacattaataacacactaatataaaggtgaaatttagcttatctggtataaaaatcatacaggaagcattgtcaaatataaaatggtgtttggctttctttggtctaaaaactaataaaaataggtgctaaaggaaatttctcagtaagaaggcaccaaggactataaagtccactgctgatgtccccacatttaaaacaaaagatcaatttcttagaaattatatacttggtttatcttccactttcctttccctcaaaactaaaagtcttttagcacaggtaccacccctagaatttccggtaaaccagcaccagcctgaggatcacgttctcatcaaagggtggaaagaaggaaaactcgagccagcctgggaaggaccctaccttgtgctgctaaccaccgagactgctgttcgtacagcggaaaggggatggactcatcacacccgagtcaagaaagcgccgccccctccagagtcgtgggccatagtcccaggggaaaaccctaccaaactaaagctaagaaaaatttaactctctttcatctattctattactctttcttctttcctcgctctattgctgaccatctagttattaacataaccaagtcaatttcgcctcaaactattgcatttaatgcttgccttgttataccctgtggggacttgccaagtcaaagacagctctctacttcagaaaagtacctctgtccctcctgactctcctcagactgggcattagtgaattgggaccatttaatccggggagatttcgataaagaccccagtgtcaaccaggagtcttgccccccgatgtagagcttttatgccgtagttggtccaacgttctgtggaccactaaagagcaaggatggactgccccaaccggtttttgtaatttcctaaaaccatacattcattttactagagggacagccctcccccaactgtcagctaaaccagtgcaatcctatacaggttattatctcaaaccctcaaagttcttccccttttctaagccggttcccttctttaagccggttttatggtatgggggctgaggtttcagggacagaccctattggattctttgaaatgcgtttctttgatcccccgccgcctgcaccttcctctaagccttcttccaaaacctctcacaacggaacaattgctcctcctccatctaacgacaagaccaagatagctatcgtagaagttaaagacttaaaacaaactttggcaattaagacaggataccaagatgcaaatgcctggttggaatggatcaaatattccgtccgcacgttaaacaaaagcaattgttatgcttgtgcgcacggcaggccagaggcccagattgtcccctttccactagggtggtcctccagtcgaccgggcgtgggctgcatggtagctcttttccaggattctacagcctggagtaacaagtcgtgccaagctctctctctgctatatcccgaagtccggcaccctgcgggtcagcccccgagggccatccagcttccgtctcccaacactaagttcacttcgtgtctctcacgacagggaggaaacttagcgttccttggagacctgaagggatgcagtgagcttaagaattttcaagagcttatcaatcagtcagcccttgttcatccccgagcggatgtgtggtggtattgtggtggacctttactggacactctgccgaataactggagtggcacttgtgctttagtccaattggctatccctttcaccctggcatttcatcaaccagaggaaggaaaaataagacatcgtaaagcgagagaagccccttatgggtctttcgactctcacgtctatttagacgcaattggagtcccacggggaataccagatcaatttaaagcccgaaatcaaatagctgcaggatttgagtcaatattttggtgggtgacaattaataaaaatgtagattggataaactacatctactacaaccaacagcgatttattaactacactagagatgctgttaaaggaatagctgagcaattaggggctactagccagatggcttgggaaaataggatagccttagacatgatattagcagaaagaggaggagtttgcgtcatgattaaaactcaatgttgtaccttcatcccaaacaacaccgcccctgatggaagtataacaaaggcattgcaaggtctgactgctctgtccaatgagttagccaacaactcaggggtaaatgacccctttacaggatggctagaaaagtggttcggtaaatggaaaggaataatagcctcaattcttacttccctcgcagccgtaatgggtgtacttattcttgtcgggtgctgtgtcacaccatgcatccgtgggttggtgcagaggctcataaaaacggcacttactaaaacctcccttaactatcctccaccttatccagagaagcttcttcttttggaaaatcaagcaaaacaactaagccaagacatgttaaaaagtttgaaaagaaagagctgtaaggaaatgcaagaggaggggt
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. :
...
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 ZNF202 73 160.0 Weakly correlated
2 ZNF382 43 99.0 Weakly correlated
3 ZNF534 38 19.6 Moderately correlated
4 ZNF2 27 99.0 Weakly correlated
5 ZNF506 27 28.9 Highly correlated
6 ZFP37 25 99.0 Weakly correlated
7 ZNF766 25 43.0 Weakly correlated
8 ZFP69B 24 99.0 Weakly correlated
9 ZNF680 21 28.9 Highly correlated
10 ZNF394 21 99.0 Weakly correlated
11 ZNF175 21 94.0 Weakly correlated
12 ZKSCAN1 20 160.0 Weakly correlated
13 ZNF18 19 160.0 Weakly correlated
14 ZNF641 18 99.0 Weakly correlated
15 ZNF479 17 6.4 Weakly correlated
16 ZNF324 16 99.0 Weakly correlated
17 ZNF792 16 94.0 Weakly correlated
18 ZNF705B 15 28.9 Highly correlated
19 ZNF823 14 43.0 Weakly correlated
20 ZKSCAN5 14 160.0 Weakly correlated
21 ZNF610 13 28.9 Highly correlated
22 ZNF707 13 74.0 Weakly correlated
23 ZNF8 12 99.0 Weakly correlated
24 ZNF585B 12 99.0 Weakly correlated
25 ZNF589 12 28.9 Highly correlated
26 ZNF257 12 0.0 Weakly correlated
27 ZNF726 11 28.9 Highly correlated
28 ZKSCAN8 10 160.0 Weakly correlated
29 ZNF169 10 94.0 Weakly correlated
30 ZNF197 10 99.0 Weakly correlated
31 ZNF597 10 94.0 Weakly correlated
32 ZNF558 9 99.0 Weakly correlated
33 ZNF354C 9 99.0 Weakly correlated
34 ZFP57 9 87.0 Weakly correlated
35 ZNF547 8 74.0 Weakly correlated
36 ZNF263 8 180.0 Weakly correlated
37 ZNF486 7 8.6 Weakly correlated
38 ZNF562 6 28.9 Highly correlated
39 ZIM3 6 87.0 Weakly correlated
40 ZNF485 6 94.0 Weakly correlated
41 ZNF596 6 94.0 Weakly correlated
42 ZNF133 6 99.0 Weakly correlated
43 ZNF140 6 99.0 Weakly correlated
44 ZNF251 6 94.0 Weakly correlated
45 ZNF320 6 28.9 Highly correlated
46 ZNF264 5 99.0 Weakly correlated
47 ZNF679 5 28.9 Highly correlated
48 ZNF101 5 43.0 Weakly correlated
49 ZNF468 4 28.9 Highly correlated
50 ZNF705D 4 28.9 Highly correlated
51 ZNF584 4 99.0 Weakly correlated
52 ZNF671 4 94.0 Weakly correlated
53 ZNF701 4 28.9 Highly correlated
54 ZNF75D 3 94.0 Weakly correlated
55 ZNF30 3 94.0 Weakly correlated
56 ZNF728 3 19.6 Moderately correlated
57 ZNF212 3 160.0 Weakly correlated
58 ZNF674 3 99.0 Weakly correlated
59 ZNF723 2 15.2 Moderately correlated
60 ZNF793 2 99.0 Weakly correlated
61 ZNF487 2 28.9 Highly correlated
62 ZNF182 2 99.0 Weakly correlated
63 ZNF224 2 69.0 Weakly correlated
64 ZNF317 2 99.0 Weakly correlated
65 ZNF41 2 99.0 Weakly correlated
66 ZNF471 2 94.0 Weakly correlated
67 ZNF549 2 87.0 Weakly correlated
68 ZNF141 2 43.0 Weakly correlated
69 ZNF554 2 99.0 Weakly correlated
70 ZNF560 2 43.0 Weakly correlated
71 ZFP30 2 99.0 Weakly correlated
72 ZNF816 1 28.9 Highly correlated
73 ZNF808 1 19.6 Moderately correlated
74 ZNF177 1 94.0 Weakly correlated
75 ZNF347 1 43.0 Weakly correlated
76 ZNF789 1 99.0 Weakly correlated
77 ZNF778 1 74.0 Weakly correlated
78 ZNF189 1 99.0 Weakly correlated
79 ZNF222 1 43.0 Weakly correlated
80 ZNF75A 1 94.0 Weakly correlated
81 ZNF28 1 28.9 Highly correlated
82 ZNF585A 1 99.0 Weakly correlated
83 ZNF440 1 28.9 Highly correlated
84 ZNF695 1 28.9 Highly correlated
85 ZNF682 1 28.9 Highly correlated
86 ZFP28 1 99.0 Weakly correlated
87 ZNF490 1 43.0 Weakly correlated
88 ZNF677 1 99.0 Weakly correlated
89 ZNF544 1 0.0 Weakly correlated
90 ZNF658 1 99.0 Weakly correlated
91 ZNF561 1 43.0 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 ZNF534 34 19.6 Moderately correlated
2 ZNF506 26 28.9 Highly correlated
3 ZNF823 13 43.0 Weakly correlated
4 ZKSCAN5 13 160.0 Weakly correlated
5 ZNF641 12 99.0 Weakly correlated
6 ZNF257 10 0.0 Weakly correlated
7 ZNF479 10 6.4 Weakly correlated
8 ZNF354C 7 99.0 Weakly correlated
9 ZNF705B 6 28.9 Highly correlated
10 ZNF169 6 94.0 Weakly correlated
11 ZNF596 6 94.0 Weakly correlated
12 ZNF558 4 99.0 Weakly correlated
13 ZFP57 3 87.0 Weakly correlated
14 ZNF212 3 160.0 Weakly correlated
15 ZKSCAN1 2 160.0 Weakly correlated
16 ZNF792 2 94.0 Weakly correlated
17 ZNF197 2 99.0 Weakly correlated
18 ZNF705D 2 28.9 Highly correlated
19 ZNF263 2 180.0 Weakly correlated
20 ZNF793 2 99.0 Weakly correlated
21 ZNF175 2 94.0 Weakly correlated
22 ZNF671 2 94.0 Weakly correlated
23 ZNF75D 1 94.0 Weakly correlated
24 ZNF701 1 28.9 Highly correlated
25 ZNF589 1 28.9 Highly correlated
26 ZNF549 1 87.0 Weakly correlated
27 ZFP28 1 99.0 Weakly correlated
28 ZNF789 1 99.0 Weakly correlated
29 ZNF723 1 15.2 Moderately correlated
30 ZNF554 1 99.0 Weakly correlated
31 ZNF468 1 28.9 Highly correlated
32 ZNF347 1 43.0 Weakly correlated
33 ZNF264 1 99.0 Weakly correlated
34 ZNF816 1 28.9 Highly correlated
35 ZNF28 1 28.9 Highly correlated
36 ZIM3 1 87.0 Weakly correlated
37 ZNF674 1 99.0 Weakly correlated
38 ZNF382 1 99.0 Weakly correlated
39 ZNF41 1 99.0 Weakly correlated
40 ZKSCAN8 1 160.0 Weakly correlated
41 ZNF101 1 43.0 Weakly correlated
42 ZNF680 1 28.9 Highly correlated
43 ZNF597 1 94.0 Weakly correlated
44 ZNF547 1 74.0 Weakly correlated
45 ZNF133 1 99.0 Weakly correlated
46 ZNF320 1 28.9 Highly correlated
47 ZNF2 1 99.0 Weakly correlated
48 ZNF471 1 94.0 Weakly correlated
49 ZNF766 1 43.0 Weakly correlated
50 ZNF75A 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
1 ZKSCAN5 160.0 Weakly correlated
2 ZNF169 94.0 Weakly correlated
3 ZNF257 0.0 Weakly correlated
4 ZNF354C 99.0 Weakly correlated
5 ZNF506 28.9 Highly correlated
6 ZNF534 19.6 Moderately correlated
7 ZNF641 99.0 Weakly correlated
8 ZNF705B 28.9 Highly correlated
9 ZNF823 43.0 Weakly correlated