ZRdb KZFP & Repeats
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LTR_MAMGYP-INT

  • Name
    MAMGYP-INT
  • Repbase
    No find
  • Type
    LTR
  • Emergence
    99.0 Mya
  • Dfam Id
    DF0000979
Description :

This is a partial reconstruction of the internal region of the firstGypsy retrotransposon described in mammals. Associated LTRs areMamGypLTR1 & 2.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
atcttggggtcccgtccgggattgctaagaatccttgtgcagcgcatatctgcaccacggactgattacaacccctagaattggagccaattgatgtttgggacaatggccgtgacnctgttggaggactggtgcgcggagatgggtgtggactctcagaagtcactgctgatttggggaataccagtggactgtgatgaggctgagnttgaagagaccttacagaatgctttaaagcccctgggcagatacagagtgcttggcaagatgttcaggagggaagagaangcgaatgcagccttgttagagtttgctganganattaatttctctgcgattcccaggagaataccnagaaagggaggngcntggaaagtgatctttaagncccctatctcggactctgaatttctaaaaaaactgaacctcttcctggagagagaagggcagacngtgncagatgtggccagagtcctngggtatgagaacacccctgtngccccaagcctggacatgccaccngagacacgggccnanntgctggggcaggcggtgggaaaggctattcagcctnttgcggaaaccacngantaccgaaagctgaggntgttttcagggagtgctactccagcnccaggggaagaggcntttgaaccctggctggggcanactactgagatgctgcaagagtggcaggtaccagaggcngagaaaagacggaggctgatggaangcctnagaggcccagcctttgaggtcattcgtgtcctcaaggcgaacaacgcttcggtgactgtggccgaatgcctgaggactctngagcaggcgtttgggnacgtngagagccgnagggctgtgcaggtcaantttctgaacacttaccagaaggcnggagaaaaggtgtctgcttatgtnctgaggctggagactctgntncagagggcgctgganagaggagctntagactcgggaagcgtggatcaggcccgcttagaacaggcgnnggccggggctactctnagcgaaacgctccgntnnaagctcnagctgaccggacnnaggccgcctcccaacttcttccagttactgaagctnatcggaggaggaagaggaaggaggaggaagnggctgctcacttccnggagcgaagggagccaggcgcaaangggganatttcngtggcaccnnccnagncccngncggctaggacagatggagactatcacggnagctgaaagcctcgactgcngctttgcaggctttcgggaagccgggtgngggcgcccttccgcaggctccctaagagccggctgccaaggcaagggganccnagtaccccgcnaaatgggnatccaccttaacctgctatcatgcggnggcccggggcacatgcagagagactgcgatngggaagaagagcccaggccccgnagcaagattggggaacttgcgagggntcggagatgaancttcctnagncggcctcgaagaagnnccatgccaggctgtcttcaagnttnnntttctcccaggactancggggccnngatggaggtggcagcgaaganagaagggatttggngctcagtggtnctggatagtgggtcacaagcgaccatagtnttnaagtcattctatgacaaacacctgagccatctcccattacaaanattgantggactgggnctntgtggcttgagtacngaagtctncccntacctnggttatgtgattatnaggctggaatttcctgaaggggtggtgggggtcagngaggaggtggacactgccgcggttgcgtgcccggacccgggaggcgtgcagggagtggtngcactgatngggacnaactccaacctntttaaagtgctagcccggtactgtcggcagcatgtaggcacagagtacctagatgttcttcctattcacgtcctgtgtgcngangcctacaagaagatggaggccgaacagaggcanatgccccccgcttcttctcctggggttgtnccanccggatcccccaaattaaatccngagagctttgatttcggggactccccagtacccgaggagtggaaggagagactgagaaggaaactccaagccaggagtaangttttctctctccatgaatgggacgtgggctgtgctcagggngagcagcataaaatagagctgnangaccctcgaccttttagggaacgntctagaaggattgctctgtctgagatcaatgatttaagagancatattaaagagctnctaattaatggcatnatntctgagtcccanagcccatatgcatcccccatcgtggtagtgcggaagaaatcaggnaaaatncggatgtgtgtggattatcgtacnctgaatagacgnactaaaatagatcagtacaccgtgccccgagttcaggatgccctggactgcttgctagggagtcagtggttttcagtgttggatttgaggagtgggtattatcagatacctatggctgangaggacaaagaaaagacagccttcatctgtccngtggggttctatcaatttgaaaggatgcctcagggtatctcnggggcccctgccaccttccagcggctgatggaaaaggtgattggggatatgaattatctggaagtgctagtttatttagatgacataattgtnttcggcaggactttggaggagcatgagcaacgactccttaaggtgctggaccgcctggaagaggcaggnttgaaattgtcccttgacaaatgccaattctgccgnacctcngtgaaatatgtngggcatatagtntcccaacagggagtgagcacagaccctgaaaagatntctgccatcaccaattggccccgtcccaccaattatagagaattaaagacnttcttggggttcagtggntattataggaggtttgtgaagaactattccangattgcnaagccnctcaatgacctaacccggggttatcaggtcagggctggggcnccaanaagaaaggggcagcccacaggacaagaggaanccagggtcccccacccctttgaacccttcggggagcgntgggggaaggcctgtgagcaggcgttcagggccttggtgaactgnttagtccaggctcctgncttagcatttgctgaccccgccaagcccttcattntncacacngatgccagttttgagggcctaggggcngtgctatatcaggacaatgnagggaagnagaagccnatagctttcgccagcnnaagtctgtctgatagtgagactcgataccctattcacaaattagagttcctggcnctaaaatgggcnatcacggacaagtttnaggagtatgtatatggagtgccttttcaagtgtggactgacaacaatccnctcacntacgtgctcaccagtgccaaactggatgctacggggcagcggtgggtggccgcactagctgactataatttcagcgttcattacagatcaggnctcagcaacaaggatgcggatgctcttttccgccggccccatccncaggncactgaaactatccccagcgagggagtcagggccatctgggnactccnaagggatnaggcgtntcctnaagggaggtatggcngaaagcttggggctncctccgagactgtgcctatggtagccgtcaattatgtggccccgggcaaatcgtcactgccccagccgggagtggaggactggaggaaagcgcagtgggcagaccccgagctaagggaagtgatgaaagggaaaanccgaggnctcctggcagaaaggatcagggctttctccaagggcatcagaattttgctccgagantggcagaaattannactgattaatggggtattgtactaggtnctncagtgccccgtaaatgggctgtggaaacaactggtnttgccccaggaataccgccccncggtnctgagagcatcgcatgatgactttggccatctggggagggaaaggacnctagaactaattagggcncggttcttctggcccaagatggcagaggacgtcaagtccaaatgtgagacttgtgcccgctgcattcagcggaaaaccttgccnacacgggcagcttatctggaaactattcagagcagcaagnccctagagttagcgtgcatngacttcttgtccttggaaccggacagccggaacctngggaacatacttgcggtgacngatcacttcacccgccgtgcncaggcntatcccaccagggaccagaaagcatccacagttgcncgggtgttatgggagaaatncttctcagtntatgggtttcctgctngaattcactcagatcaagggagagattttgagagtcgnttactgcgggaagtacttcanttagctgggatacagaaatccaggactactccctatcatccccaaggggacccncaaccngagagatttaacagaactttattaaacatgctggggacgctncgccctgagcagaaggggcagtggagccagcacgtggcattcctggtncatgcctacaatgccaccaggaacgatgccactggctttacctctcatttcttgatgtttgggcgggagcctcggctgcccattgatctctgctttggggtgggcganggaggtgaganntcgggaaacctcactcagtatgcagctaanctnagggacaaactncaggaancttaccggttagccaccgctgcagctcgncgcaacacagantggaataagcactagtatgatgccagggtacggtgncaggagctgcaggaaggggaccgagtnctgctgtggaatttggggctgcccggtaagcacaaaatagccgaccgctggaaggcnacnccntatctagtggtagagagacttgggacnctgccngtgtacaaagtgcaggcagagaatgggncagggcaagtcaaggtgatccaccgaaataacttnccgccnataggggaactggtggggaaaactgcccccacatactcnaacgcaganggagtccgccaagnagaagcggagagnaactctccaagnagaacttgaganatgccgctcctgactctncagggagcggagaaagg
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 ZNF263 24 180.0 Weakly correlated
2 ZNF382 16 99.0 Highly correlated
3 ZIM3 15 87.0 Moderately correlated
4 ZNF479 11 6.4 Weakly correlated
5 ZNF766 9 43.0 Weakly correlated
6 ZFP37 7 99.0 Highly correlated
7 ZNF2 7 99.0 Highly correlated
8 ZNF394 5 99.0 Highly correlated
9 ZNF317 5 99.0 Highly correlated
10 ZNF723 5 15.2 Weakly correlated
11 ZNF610 3 28.9 Weakly correlated
12 ZKSCAN1 3 160.0 Weakly correlated
13 ZNF320 3 28.9 Weakly correlated
14 ZNF534 3 19.6 Weakly correlated
15 ZNF554 3 99.0 Highly correlated
16 ZNF558 3 99.0 Highly correlated
17 ZNF597 3 94.0 Moderately correlated
18 ZNF679 3 28.9 Weakly correlated
19 ZNF705B 2 28.9 Weakly correlated
20 ZNF563 2 28.9 Weakly correlated
21 ZNF528 2 43.0 Weakly correlated
22 ZNF519 2 19.6 Weakly correlated
23 ZNF486 2 8.6 Weakly correlated
24 ZFP69B 2 99.0 Highly correlated
25 ZNF429 2 28.9 Weakly correlated
26 ZNF471 2 94.0 Moderately correlated
27 ZNF331 2 94.0 Moderately correlated
28 ZNF101 2 43.0 Weakly correlated
29 ZNF257 2 0.0 Weakly correlated
30 ZNF169 2 94.0 Moderately correlated
31 ZNF792 1 94.0 Moderately correlated
32 ZNF780A 1 43.0 Weakly correlated
33 ZNF747 1 43.0 Weakly correlated
34 ZNF735 1 28.9 Weakly correlated
35 ZNF133 1 99.0 Highly correlated
36 ZNF705D 1 28.9 Weakly correlated
37 ZNF136 1 74.0 Weakly correlated
38 ZNF701 1 28.9 Weakly correlated
39 ZNF680 1 28.9 Weakly correlated
40 ZNF175 1 94.0 Moderately correlated
41 ZNF189 1 99.0 Highly correlated
42 ZNF589 1 28.9 Weakly correlated
43 ZNF584 1 99.0 Highly correlated
44 ZNF578 1 15.2 Weakly correlated
45 ZNF18 1 160.0 Weakly correlated
46 ZNF197 1 99.0 Highly correlated
47 ZNF549 1 87.0 Moderately correlated
48 ZNF273 1 28.9 Weakly correlated
49 ZNF347 1 43.0 Weakly correlated
50 ZNF506 1 28.9 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 ZNF479 8 6.4 Weakly correlated
2 ZNF263 5 180.0 Weakly correlated
3 ZIM3 5 87.0 Moderately correlated
4 ZNF382 2 99.0 Highly correlated
5 ZNF429 1 28.9 Weakly correlated
6 ZNF780A 1 43.0 Weakly correlated
7 ZNF723 1 15.2 Weakly correlated
8 ZNF589 1 28.9 Weakly correlated
9 ZNF534 1 19.6 Weakly correlated
10 ZNF331 1 94.0 Moderately correlated
11 ZNF549 1 87.0 Moderately correlated
12 ZNF558 1 99.0 Highly correlated
13 ZNF506 1 28.9 Weakly correlated
14 ZNF347 1 43.0 Weakly correlated
15 ZNF610 1 28.9 Weakly correlated
16 ZNF528 1 43.0 Weakly correlated
17 ZNF320 1 28.9 Weakly correlated
18 ZKSCAN1 1 160.0 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