ZRdb KZFP & Repeats
...

LTR_MER34B-INT

  • Name
    MER34B-INT
  • Repbase
    MER34B_I
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000752
Description :

MER34B-int is the internal portion of the non-autonomous, endogenousretrovirus MER34B. The associated long terminal repeat is MER34B. Notethat MER stands for MEdium Reiteration frequency interspersed repeat. Assuch, MERs as a group are a grab bag of DNA transposons andretrotransposons.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
ttattcctttgcngttctggcgatgagggngggacttttctgggacaccccactcgctccggagcctgcagatgggatcctggganaactgacaaaagccggcaaaagggtaagaanttcttaccaaagtcagctctcccggatctctnnctgtctgtagtgcccggtcgagagaggaaggtaaaaatttctcctnncccttcctttccaaattcagattagcaggagaaaaacatttataagaattagtttgaattgtgacttttggttttggggtacccatttgttattgatcctttccctcccanggacagctattgctttcctgtttgtctcattttgtgtcctgagaacttggcttggctttccgcctgttgagggcacacgggttgtcgggcctgcgtgtgcaggcagccnaccgaaaggccggacagaaatgtgggttgtaccccatttgcggctagcgtaccgactgttgccagctctcaaggagtctaagtctttctttcttctggctgtctttgggagtggctctggatcttgagagggctgcatcttttcacctctttggagacgccttttgcgtccgtggttaagccataaaaggcttattggttttggtctcgagtcacttggtaggtatacctttggtttaaaaanntncgtttaaaagtttggtttctgatattcaaagcctganagaagcaattttctttaaaaggccnctctgttctctctatttgatcctgcttctcccatgggaacttctcngtcaactgaaacccctcttctcaaatccctgctgactatnttntctgncccctctgtccgcttcttttcttgttggcataatttttntcaaggataatgtggaacttcattggctcctttgggaaacttaagatctccccaaactggctcctctaagcctcagtcacttgnactttagggtccagctctccaaggacctcggggccncnaaaagcaaccgcctaaggctaaaaagganaaagactaattggaaatagactggtacctaaaatttagtccacagcctccataagattgacctctgataataggcaatntgccccaaaactccttcttggaggaaagcttgcatcctttctctgtgcctttgagactaaatnttctaccncgtcttanctganaactatcctctttaaaatgcaaanttcagggagatgactcatcagaaggaaaaaagntatttggaaattgggcaaatgaaaaatcttaaaagtcttttccacaaatattagaaaaagctttagccatctgagcaggtaaccttaacttgttccatctgccagaaacacaatttggatccagntattcttttataaactagtgagttttgtattattgtacctggcacatggctaaaattttagaatgaaagctataagatctttgtntctgtctgtatgtttatgtatgtttatatatgtgtatatgtttntgtgttatgtatgcatattttctacctccggatggtattgccaaaattaatttgtaaaagagctctatttaattggcttaaagaaaaataagtgtaaattaagtattcctaaaactcctagaaanataggaactaacccaaatgcttttcaagttcacgtgacttgggtaaatctttggtaaataagactagtttaanattgttggtttaataaaaacagncatgtcttccgagttgtcagcattaaatataatacggacatcgacatttttattcttgttctacctgggtttactagtcaaataagtttatgttatctctactagatgtttaagattataaaactatgagttcaacctaagaacaaatgtgcaagtgaangtgcagtgctcattacttcatgtatatcaagcacagcagaaaaaaaacatgtatttaacttttaggttcttgctttcgtgatgattgcctaacatgcacgtgctgtaaaaaagttaacagggaaataacttgagatgatggctagctttgtttaatgtctcatgaaattttcatgagcaatccaagcataattgttaagaacaagtgaattaaatagatgtaagtgggataaaatttataaatgnactaacaataattatgttttataatatgtctacttaaaaatagntttccaaatctctttggtaacttananccttagagtnttantaagttaaataatagatattcattaaatatctagatcatttccaaataagataaaatactgataattgctnacataagtttnactacttttggcttcttattataagaagaactaaagatatttgggtctgttagtaaacatgtcctgtgccacattgaaaaattgtactatgaggaagcacatgcttctagaaattaaagttactaagagttaagaattctaattaatatatgtaattaaaactactagaaataataagggaaacaactctatatgcaaggaaagtaagatgtgtttttggtaaggaaagctataaggtatgaggatgtgtttttgttaaggaaaagagagtaatnnnttttgtcctaaagtagaatgacnggttgttccagaatgaaaaaggagaatgaaggacaaaaactgaatggatatagaaagttggaagagagagataaagagagagaatntttcatggctaaaatggaatnaatttattataagtgttttaaaaatgagcnttaatatcaaaagtacactgatgcaaaactagaatttggtcttctctctgttaaaacgacaaggttttcttggagtattggtctgctcttgaaaggttttctttaccttttaagtaanctggctaggaaacaaagattttgtgttttatcaagataatttcctgtgcttcatgttgtcttttattaggtctttgattacttaagaaaactgagtcttctctattaaaagagctaaggtttttttctacaactatgtaactttctgtatttgcctttgaagtcttttaattatcactctggttaaatgaatgactattgtttcacagtgacctgtgatcctttttaatcaagtgttttaaaccttttgacatttttgacaacttcccaaaatcaaattctaaattaagtctttttgacctcgaattaactttgggattttccagacgggcccctggaanatctcaaaagaatntgttctntctccttatancgnnnnaaagagagatattaaactaattaggcttatttgatatgttaaattgtatgggaagcattgtcaaataataagtgatgctaaaccttctatatgttattaanatgatatttcagaaattgtatgaaattcctagaaatctgatacgtcctggtataatgttatcagtcataattctggttattatcttaaaatgttgtatgccacagaaataaaatttccttgtcaattgcattataatgaactctcatcagatctttaaccatggccattttaagtcttgtcatccacagttaattgttttactctgattctttcctgaaagcntttgcaagcagctataatcctaaagtgtttcgtcttcaaggagattcatggaaaggactctgacaagtacaggtttctgataactttaagatcataccattggactgggaagaatttccagaactctaatgaagaaactgatgggttcatgaaactgctaaccnaagatcaagcagaacaagaattaattacatgggactgaatgaactgatgaaaaagaattatgttttnttgnaaacttgttgtttaaaactgtnttgattttccagatttaagaaaactttttcttttantttaagctatctatagcttacagcaatttggtaaagtatacttttgtgaacaaaattgaaacatttactttttctccctacctgatccctccagaattcggaaactattcgtgagtattctatttttatggcaatatagttatttgcataagttcaataagaatctgttctctttnttaacaggacacaattggaaacactggttatattaccaaggcntttgactggaatgtcatatttgagaatgtgcatagaatcagatatgaccagnttttaaggaactaaggttgactttatggagccaataacnatnncttgaccccttggaaaaactggcctggtanctgnnttanatgggttcccagncttacaggtgagtaaggaatgtcacttcctggcaggcccgggaacctcgggatattttggggacctcaagaagagaggaattcacctaaatctataggtattacaggcgcagtctgatggcaagtcctnggcttggcttcctagcctcgagaggcttttaaaagtctaatctgagattccttatnaaaagttccagnaaagcagagtntanatggtcaatcactattcttgctgcacttatgtaaataatcaggccaagtttaatgagactagacttattttgcaaacaaattagtcttactntgattatctttggtagaaatgggggtgacngtanagagagaaaaatatgtttcagnagaaaactatagtgcantcattactattcattgttttcgaggttttattatctacctgtaanctggactggatcctgaattcttctagtttcctccaatatctggctacgactctccaaactaacgtttccaattttctcccacccttctgacttggaatcactaaaaactaaaactgcccttttcccgaagccctgcaagctgaagctggacgacttgatataaacttcagagaaatcaccacaacagcttatgtatggacaaccttcgtgcctgctgctgtnatgggccactcagaaagttcaccggaacacctgatgcaaactgcaaaccaggaaaatccgtcagattgccactgcctgccctcactccanctgaagatgcttcgagctcaaatctagaaatcttctcgactggctgccctctggactcaaaaactgagtttatagtttgctctattaacctttgtttttcttttgtttccatagaaatgcctcttattaaatacctgnttgctcgcaccatatagaggcctaactttggtgggagcccacctgcaacgccgcctcctgaaatgagacacaactgtttaactggactgacctattctcaggactgagactgattcaataagatatgggacaatatacttaaatttgttcttttctgcttgttccaatctatgtttttctctccctttgccgatctcttatctnacaacctctaacccaaatctctccanagctaccaacccnacttttaatatgtgnaaactttctaaaaataaagtttcaaaggggggac
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 14 99.0 Highly correlated
2 ZNF549 10 87.0 Moderately correlated
3 ZNF394 6 99.0 Highly correlated
4 ZNF680 5 28.9 Weakly correlated
5 ZNF175 5 94.0 Moderately correlated
6 ZNF766 5 43.0 Weakly correlated
7 ZNF263 5 180.0 Weakly correlated
8 ZNF679 4 28.9 Weakly correlated
9 ZFP37 3 99.0 Highly correlated
10 ZNF2 3 99.0 Highly correlated
11 ZNF589 3 28.9 Weakly correlated
12 ZNF101 3 43.0 Weakly correlated
13 ZIM3 3 87.0 Moderately correlated
14 ZNF224 2 69.0 Weakly correlated
15 ZKSCAN8 2 160.0 Weakly correlated
16 ZNF723 2 15.2 Weakly correlated
17 ZKSCAN1 2 160.0 Weakly correlated
18 ZNF607 2 43.0 Weakly correlated
19 ZNF534 2 19.6 Weakly correlated
20 ZNF701 2 28.9 Weakly correlated
21 ZNF486 2 8.6 Weakly correlated
22 ZNF506 2 28.9 Weakly correlated
23 ZNF677 1 99.0 Highly correlated
24 ZNF707 1 74.0 Weakly correlated
25 ZNF705B 1 28.9 Weakly correlated
26 ZNF705D 1 28.9 Weakly correlated
27 ZNF519 1 19.6 Weakly correlated
28 ZNF735 1 28.9 Weakly correlated
29 ZNF736 1 43.0 Weakly correlated
30 ZNF789 1 99.0 Highly correlated
31 ZNF793 1 99.0 Highly correlated
32 ZNF799 1 43.0 Weakly correlated
33 ZNF610 1 28.9 Weakly correlated
34 ZNF584 1 99.0 Highly correlated
35 ZNF570 1 99.0 Highly correlated
36 ZNF558 1 99.0 Highly correlated
37 ZNF528 1 43.0 Weakly correlated
38 ZNF479 1 6.4 Weakly correlated
39 ZNF417 1 28.9 Weakly correlated
40 ZNF33B 1 99.0 Highly correlated
41 ZNF334 1 99.0 Highly correlated
42 ZNF28 1 28.9 Weakly correlated
43 ZNF284 1 43.0 Weakly correlated
44 ZNF273 1 28.9 Weakly correlated
45 ZNF18 1 160.0 Weakly correlated
46 ZNF140 1 99.0 Highly correlated
47 ZFP69B 1 99.0 Highly 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 ZIM3 2 87.0 Moderately correlated
2 ZNF534 2 19.6 Weakly correlated
3 ZNF101 1 43.0 Weakly correlated
4 ZNF33B 1 99.0 Highly correlated
5 ZNF382 1 99.0 Highly correlated
6 ZNF506 1 28.9 Weakly correlated
7 ZNF789 1 99.0 Highly correlated
8 ZNF707 1 74.0 Weakly correlated
9 ZNF723 1 15.2 Weakly correlated
10 ZNF735 1 28.9 Weakly correlated
11 ZNF479 1 6.4 Weakly correlated
12 ZNF680 1 28.9 Weakly correlated
13 ZNF2 1 99.0 Highly correlated
14 ZNF677 1 99.0 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