ZRdb KZFP & Repeats
...

LTR_MER31-INT

  • Name
    MER31-INT
  • Repbase
    MER31_I
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000766
Description :

Related to MER4-int, MER41-int, MER57-int, and MER65-int. MER31-int isflanked by either MER31A-B or MER67A-D LTRs. Note that MER stands forMEdium Reiteration frequency interspersed repeat. As such, MERs as agroup are a grab bag of DNA transposons and retrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
tggggccccaggcctctcacccaggaccccaagtgtgcacctttgaagcctttgtcttcactcctgactgactgatcggggatccattggtgagtccgactcctgagccantgctccggacgacagtccgttgaagcatggtaaggacagattttgattcttaaggtccaggcttcttttgaaaggtaccgnncctcctgggctggaagnccttcttcctggctccttgtttcgagtggggattcattccctgactcctgggctggaagtctttttttggctctctgtgaggcctctctgttctctctatttgatcctgcttctcccatgggaacttctcagtcgactgaaacccctttctcgaacccctgctgactatatgctccgccaactctgtccacctccttccttgttggcatgattttgctgaggataatttggaacttcantggcctctttgggaaacttaagatctccccaaactggctcctctaagacctctcccttcccattgcttctgctcctccttctgccaccttcgatcttcccttcagttcccttgaatcctttgatatgtcccccttcaagcccctacctcctccatccctctgtccacccctgccagacctttcccttcccactccagcccctcaactccctacagtcacttgaactttaggccccctgccccancngggggctctcaagggactcagggacccccaaaagcaaccacctgaggctgaaaaggctaattggaaacagactggatattttatccactcagatgggctttggagacatccagacagccgcttgatgtctcctcagtccctcgcctaaaatttagtccacagcctccataagattacatatcagggcaaagaaaatcttaaaagtctcctccacaaatattggtaaaaagctttagccctcatattgagcaggtaacctcaacttgtcccatttgccagaaacacaattcggataaaaatataaagtggagcaaagacgangagccaactcttttatataaaccagtgagttttgtattactgtgtttatgcctgactcatggctaaaattttagaatgaaagctataagatctctatttgtatctgtctgtatgtttatgtatgtatgttatgtatatgtgatatttttctacctccggatggtattaccaaattaatttataaaatcccttaaagagctctattcaaattggcttagaganaaatgagacttatataaattaaatattcctaaaactcccagaaatataggaactaacccaaatgtttttcaagttcacgtgatttgggtaaatctttggtaaataagactagtttaatattgttggtttaatnaaaanaggntatgtcttcagagttgtcagcattaaatataatacaagcatacatttttattctacttgggtttagtagtatgttatntctactagatgtttaagatcataaaanttataaattcgacctaagaacgaatgaagaagtgcagtatccattacttcatgtatatcaagcacagcagtaaaacaaaacccatgtatttaacntttttaggtttttgctttgntgatgcttgcctaacatgcacgtgctgtaaaantagttaacagggaaataacttgagatgatggctnagctttgtttaatgttataatatgtctgcctaaaaatagtttccaaatntttggtaacttgnaaccttagagttatgctaagttaaattaagtaatagatattcattaaatatctagatcatttctaagtaagataaactactgaaacattactaagcntaagtttaagtttatatacttttggnttcttatttttatatggtacagagaggctaaaatatatttgggtctgttaataaacatgaaaaattgtactatgagaagcagcatatgcctntaaaaattgtgagatggtatattcataaaatttgctagtctgcgcgtacagaatgctggtatgtgacagacagttcacaattgtctacttcctagttttcttctgtaaaagaaaggttactaatggttaaaaantattatcnannnatcaatatatgtaantaaaactactagaaataataaggntgagggaaacaactttgtatgcaaagtatgcaaggaaagtaggntgtgtttttaataaagnatataaagtatgaaggatgtgttttcgttaaggaaaaaaagagtaattttgtcctaaagtaaaatgactggttgttcagaatgagaaaggggaaaagtgtaggacaaaaactgaatggatatnnnnnaaaagttgtagaagttgtggaaaaggaattttatgtgtggtcaagntgctaatttatttataaggnttttttaagctcaaatagtacactgatgcaaaactagaatttggttttcnctctgttaaaacgacaaagttttcttggantattgtaaaaggtttttctttaccttttaagtaatcggcctaggaaacaaagattctgtgttttatcaagataantttcctgtgcttcatgttgtctttatcaggtctttgattacttaagaaaacgagtcttctcaatnttaaaagagctaaggttntttttcncaactatgtaactttctgtatttgcctttgaaatcttttattgtcactttggttaaatggataactaagtatgtttcacagtgacctgtgatcctatttaatcaagtgtttaaaccttttgacatttttgacaaacttcccaaaatcanaattctaaatnaagtctttttgacctcgaacntaactttgggattttccagagggcccctggaaaatctcnaaagaatttgttctctcaccttgtaaaagagagatattaaactaattaggcttatttgatatgttaaattacatgggaagcattgtcaaataagaagtgatgcttaaccttctttgagttatatttgtatgggtanntgttattaatataagtgttccagaaattgtatgaaattcctagaaatttgtcaatgncctcgntntncatgatatgtccggtataatnatgttatcagtcataattccggttattatnttaaaatgttgtatgccacagaaataaccaaatttccttgtcaaatgaactctcatcagatctttaaccatggccattttaagtcttttgtcatccacagacagttattgttttactctgattcttctctgaaagcatcttgcaatcagctacagnccaaaatgcttcgtcttcaaggagattcatggaaaagacaagtactctggaatacaggtttctgatactttanagatcataccattggactgggtaagaatttccagactctaatgaagaaactgatgggttcatgaaactgctaacccaagatcaagcagaacaagaattaattacatgggactgaatgaactgatgaagatgatttatagttttttatgntttttgtttgaaacattgctggttctttaatgttttgttttccagatttaaggaaactttttcttttctcttaagctatctatagcttacagcaatttggtaaagtatacttttgtgaacaaaaatgaaacatttacttttctccctacctgatccctccagaattcggaaactattnntgagtattcttattttcatggcaatatagttatttgcataagttcaataagaatctgttctccttgtaacaggacacaattggaaacattggttatattaccaaggctttgactggaatgtcatatttgagaatgatgngcatagaatcagctttaaggaactaaggttgactttatggagccaatgcttacaaagccctcttggaaaaaccggcctggtacctggcttacagggttcccggccttacaggtgagtaaggaangtcacttcctggcaggcccaggaacctcaggatattttggggacctcgagaagagaggaattcacccaaatctataggtattgcaggcgaagtctgatggcgaagtccttggcttggcttcctagcctcgagaggcttttaaaagtctaatctgagattccttatnaaaagttccagcaaagcaaacttnaaaagagcctatgtggtcaatcactattcttgctgcacttatgtaaataatcaggccaagtttaatgagactagacttattttgcaaacaaattagtcttactntgattatctttggtagaaatgggancgaggtgactgtagagagaaaanttatgtttcagnagaaaactatagcgcacccgttattagattctagccctgttcattgtttttggttttgttatctacctgtaaactggactggatcctgaattcttctagtttcctccaatatctggctacaactctccaaactaacgtttccaatttttctcccacccttctgacttggaatcactgaaaactaaaactgcccttttcctgaagccctgcaagctgaagctggacgacttgatataaacttcagagaaatcaccacaacagntcatgtatggacaaccttcatgacacccaaactgcaaaccaggaaaatctgtcagctgccactgccnncctcactccanctgaagatgcttcgagcccaacatctagaaatcttctcgactggctgccctctggactcagaaactgagtttccaactattaatctttgtttttcttttgttttcatagaaattannnncccctcattaaatgcctgattgctcgcaccatccagcaaatatcctctactaccaagtcccaacagatgattcagctggtccttaatgaacaaaaggcgaccgaacgagaaaatggacttatattgttcaaaggaaagaagaatgtctcttctttccttgaacaagaggagggactgacaaagantctctttttg
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 ZNF382 34 99.0 Highly correlated
2 ZNF680 16 28.9 Weakly correlated
3 ZNF766 14 43.0 Weakly correlated
4 ZIM3 13 87.0 Moderately correlated
5 ZNF175 12 94.0 Moderately correlated
6 ZNF18 10 160.0 Weakly correlated
7 ZNF589 9 28.9 Weakly correlated
8 ZNF506 9 28.9 Weakly correlated
9 ZFP37 8 99.0 Highly correlated
10 ZNF263 8 180.0 Weakly correlated
11 ZNF394 7 99.0 Highly correlated
12 ZNF2 7 99.0 Highly correlated
13 ZNF584 6 99.0 Highly correlated
14 ZNF679 5 28.9 Weakly correlated
15 ZNF486 5 8.6 Weakly correlated
16 ZNF705B 5 28.9 Weakly correlated
17 ZNF610 4 28.9 Weakly correlated
18 ZNF317 4 99.0 Highly correlated
19 ZKSCAN1 4 160.0 Weakly correlated
20 ZNF793 4 99.0 Highly correlated
21 ZNF554 4 99.0 Highly correlated
22 ZKSCAN8 4 160.0 Weakly correlated
23 ZFP69B 3 99.0 Highly correlated
24 ZNF607 3 43.0 Weakly correlated
25 ZNF197 3 99.0 Highly correlated
26 ZNF695 3 28.9 Weakly correlated
27 ZNF558 3 99.0 Highly correlated
28 ZNF429 3 28.9 Weakly correlated
29 ZNF701 3 28.9 Weakly correlated
30 ZNF284 2 43.0 Weakly correlated
31 ZNF682 2 28.9 Weakly correlated
32 ZNF549 2 87.0 Moderately correlated
33 ZNF808 2 19.6 Weakly correlated
34 ZNF133 2 99.0 Highly correlated
35 ZNF479 2 6.4 Weakly correlated
36 ZNF723 2 15.2 Weakly correlated
37 ZNF425 2 94.0 Moderately correlated
38 ZNF189 2 99.0 Highly correlated
39 ZNF30 2 94.0 Moderately correlated
40 ZNF257 2 0.0 Weakly correlated
41 ZNF705D 1 28.9 Weakly correlated
42 ZNF91 1 6.0 Weakly correlated
43 ZNF735 1 28.9 Weakly correlated
44 ZNF77 1 87.0 Moderately correlated
45 ZNF789 1 99.0 Highly correlated
46 ZNF92 1 28.9 Weakly correlated
47 ZNF671 1 94.0 Moderately correlated
48 ZNF611 1 19.6 Weakly correlated
49 ZNF597 1 94.0 Moderately correlated
50 ZNF534 1 19.6 Weakly correlated
51 ZNF485 1 94.0 Moderately correlated
52 ZNF471 1 94.0 Moderately correlated
53 ZNF441 1 43.0 Weakly correlated
54 ZNF350 1 99.0 Highly correlated
55 ZNF324 1 99.0 Highly correlated
56 ZNF287 1 99.0 Highly correlated
57 ZNF264 1 99.0 Highly correlated
58 ZNF182 1 99.0 Highly correlated
59 ZNF101 1 43.0 Weakly correlated
60 ZKSCAN5 1 160.0 Weakly correlated
61 ZFP57 1 87.0 Moderately 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 ZNF680 7 28.9 Weakly correlated
2 ZIM3 4 87.0 Moderately correlated
3 ZNF793 3 99.0 Highly correlated
4 ZNF584 2 99.0 Highly correlated
5 ZNF506 2 28.9 Weakly correlated
6 ZNF701 2 28.9 Weakly correlated
7 ZNF766 2 43.0 Weakly correlated
8 ZNF589 2 28.9 Weakly correlated
9 ZFP37 2 99.0 Highly correlated
10 ZNF263 2 180.0 Weakly correlated
11 ZNF479 2 6.4 Weakly correlated
12 ZNF317 1 99.0 Highly correlated
13 ZNF808 1 19.6 Weakly correlated
14 ZNF735 1 28.9 Weakly correlated
15 ZNF723 1 15.2 Weakly correlated
16 ZNF671 1 94.0 Moderately correlated
17 ZNF534 1 19.6 Weakly correlated
18 ZNF471 1 94.0 Moderately correlated
19 ZNF133 1 99.0 Highly correlated
20 ZNF287 1 99.0 Highly correlated
21 ZNF2 1 99.0 Highly correlated
22 ZNF789 1 99.0 Highly correlated
23 ZNF264 1 99.0 Highly correlated
24 ZNF189 1 99.0 Highly correlated
25 ZNF175 1 94.0 Moderately correlated
26 ZNF485 1 94.0 Moderately correlated
27 ZNF197 1 99.0 Highly correlated
28 ZNF18 1 160.0 Weakly correlated
29 ZNF679 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
1 ZNF680 28.9 Weakly correlated