ZRdb KZFP & Repeats
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LTR_PABL_B-INT

  • Name
    PABL_B-INT
  • Repbase
    PABL_BI
  • Type
    LTR
  • Emergence
    74.0 Mya
  • Dfam Id
    DF0001051
Description :

PABL_B appears to be an autonomous endogenous retrovirus (Gag+ Pol+Env),composed of this PABL_B-int internal region, and the PABL_B LTR. This isrelated to the HERV3/HERV4/HERVE group of ERVs.
Consensus sequence The consensus sequences obtained from Dfam are derived from the seed alignment using a specialized caller. :
aatttggtgagccagccaggagccgctgggacggngctgcgttcagcggccagcggcttgtaacgagacagtcttcaggagactcccagcagctgctaggtaagattttcctggggactctcctgagggctgtcccttggacaaaaccacacgtccctctcactactggggaagaacggaggtcaggancggacntgctcaaagggtgagtaaaaccgnacctgataagggacctattnttttcctatctgggctcgttaagccatttgttcggtaccattagggaaacaatagggctcgtttgtacacccgctttgcgtttggttaaaatcaggttttnanttggttttgantctgttctgcctgactgactcctctcatgtccttgcgtttgtccgaaatctatctccacttgtttgtgtatctgtcctggtctttctgatacatataagctcgaaaatgggnaacgctgcgtctattcccncngggagccctctggggagnatcctgtcggattggaaacactntggntatccgcccatgactaaaagaaaantaatctactattgcaatacggtttggccaatgtacgttttagaatctgaggaaaggtggccgattttngggtccttgagctattctaccatctatcagttagaatcgttttgtcagaggtcgggaaaatgggangaaataccntatgtccaggcntttatgttgctgcataatnaggatgtcaaagagaagggagataagctaatggtgcagcactcagccaaggtctgtcctgactcccagggagagaaganaaggactcngaaanccaacagttgataaatgtnctnaaccccgtaggnnncgtcccacctanncggtgggagctaatgccccaccaccgagctncaggaaaggggagagtcgccacccccagagtataaggaagcngcagagntggtctctccctctcgnaccngacagggcactaantttggccggggagccaccgngcccggagcagggcaattcccactntgacaataccctgtaggggttaatcagcagggggcnccngccggatattattgggcntacagcccttttccacntctgacttgttnaattggaaaaactccaacccnccctatagggaggacccccagaaaatgactganctntttnccnctatntttgctacccatcaccccacctgggcagatgtgcaggctctcctaaacattntgctnaccgcagatgagaggaggctagtnttaganaaggcnaaggaggaggcngancgcctccatgangaagacccagacgataccccagatcccgacggggcagttcccnncacngacccnaantgggacccnaatgaggnnaatggaggtngaatggcccgcctggagcactacnggaantgcatcttggcgggcctcaagtnaggggtgcccaaacanaaaagcctnaataaagtccaggagntccggcaaaagcctaatgaggacccctcngaattcttggaacgnatttgtcaggcctncngnaaatatacggatatngacccagaggcccctgaaaatntnaggatggtaaacatgacttttatcgggcaaagtgcccccgacatnaagaggaagttgcaaaaagtagaaggggccgttggaatgaatncctcccaattggtggatattgctttcaaggtntacaacggcagggaagcnaaggaaactaaagccctncggcaggcagcaatactcntggcaacagcgggaggaaacccgagaaggaagggacccgnaaagcggaaagggaaaatagaaaaggatcagtgtgcntactgcngggaaacagggcattggaaaaangattgcccaaagttaagccagaaggaaccgaggccactnatggcggttaagcccgggaatgantccgaggaagantgagggtgcccaaggctcccagcagctccaantctatcngacattaaaatttccccacaggagccccgggtanaantgacagtggggaancaaaaattggacttcttggtcgatactggngcnacttattcggtanttaacacnccgatgaccgaactttctgacacgnctgtnaatatggtcggngtnagcaggaaactgagaccagagcagttcctgcgacccctntcatgtaaantgggcaatgatctaataactcaccgnttcctntatgtgccggantgcccgattcctttgctgggnngagacctgctatgcaaattaaatgctcaagtcgtcttcnncccngagaaacgncagntgcgcctccaggtnccnccggaacanggactgcggctgcaggcgcttctgacgagnncngaggcctcacgccctaaggnagagacggtccctcaggaagtcttcgacaaggtaaanccagaagtntgggcatgagaccgacccgggagggcaattaatgcgagtccggtaaaaatcgaactnaaggaaggggcccaacctatccggaaaaaanaatacccnttaaagagggaagccttagaaggnatncagccngtnttagncaaattcttgnagnacggnctnattcgnccttgtcagtccccatacaatacccctatcctgcctgngtnaagaagccncactcanacgaatatcgatttgtncaagacttgagggcnattaatganatcgtnnaagacattcacccnacggtgcctaacccatacactntntttacctcnctgcctggggatcacgaatggtttncagtgttagatctaaaagatgccttcttttgcatnccnntggacgcagaganccagnnattgtttgcctttgaatgganagacccngagaccgcngcncagtttcagtattgttggacngtgctncctcaagggtttaaaaactcnccaactatntttggggaaatnctggcnaaagacttaagagacctacaattagaaaatggggtnctgctacaatacgtggatgacttgctaatnnccagcccctctgagcaagagtgccaggataacaccattnnaactctaaatcgcctggcagnntgngggtacaaggtntcaagcaaaaaggcccaaatntgcaaacaaactgtggaatacttngggtttctcctacagaaaggaaccagagccctgaccgcggaaaggcgaaangcaattgcctccatngccacgcccgcnaccagaaggcagctgnggggnttcctaggnatggcnggnttttgccggatttggattcctaattttggactnatggcaaagccnctntatgaancnttaaaaggancngacnatgancccttcgactgggnagcaaggcgccaacanncattcgaacaactaaagnntaagttancngtcgcccctgccctggggctnccaaatcctcanaagccnttcgaactttacgtncatgagagacngggnntagcactnggggtnctaacccaaaanctaggagaagtatcacagcccgtggcctacttttcaaaacagctngacaccgtggccaagggntggcccccctgcctcngggcagtngctgccacctgcntgctnctcnaggaagcngaaaagttnaccctgggncagcccgtcacngtntacgtgccccaccangtgctgncgttactggaacaaaagggaggctactggctgacngcgggnngantgggcaaataccaggccatnctcctagatgacccnaangtnannctgcaaaccgccgnngccctaaaccctgccaccttgctnccncccaccggggagccggaagaacccatgcataactgtctagaaattattgancaagtntnttccagccgnccggacctgnnggacgcagccctcccatgcgcagactggacgttgttcgcngacgggagcagcttggtcanngacaggaagagaaatgccgggtatgccgtggtgaccncctnagaggtaatagaggcaagnactttnccnncaggnacctcngcacagaaggcngagctaatcgccctnaccagagccttncaactgtcccaaggnaagagngcnaacatttacactgactccaagtatgcnttcntggtagtncatgcncacggggcnatctggaaagaaagggggctnctaannncnganaatanngaaattaaacacgcnanggaaatnttggcnctactagaggcagtaaaggccccanaggaagtagctgtaatgcactgccctggncatcagcgcggcgattccgaagtggcaaggggnaacgctttcgcagaccgcgccgccaggcactcagccagcgccagcgttgaatccgggcgcctttaattccccaaatagacttgncggccttcaagccccagtacantcttcggaggatgaaaaggctgcngaggacnggggattcanactaaacaaggaaggntggaaagtaaacaacgngggcntagtctgggtgccggcgcacctcgtccgcccaatgttaaaacacatncatgatagcacgcactntgggngagatgcctcactagccttcgtgcagaantatncgaaagggaaaggactaaaggcccacttagaaaatataatccagcgttgtcacctgtgtgccaaaaatgancccaanaatcacagccgagggcagcccgggcaacaagaaagagggaggcgcccactngaagactggcaaatngacttcacccngatgccnncggcncctggaagntntaaatacctcctggtnctngtagacaccttctcnggatgggtngaggcntacccatgccanaccgaangagcnacngaagtagctaaagctttgctaaaggaaatcattcctcggttcgggctccctgacgcaatncaaagtgacaatggnccttcnttcatntccgaagtnacncagnaagtaagcgaagcnctnggaataaaatggaaactacactcancntggagaccncaatctnctggaaagactgaaaggatgaaccacaccttaaaaanaatcgttgccaaactntgccaggaaactcanttgaancggantnaggtacttggcattgccctgctccgggtaagagtggcccccagaagtgggcttaagttaagcccctntgaaattatntntgggagaccctttgcngctaacccgtctcgggttactgaagtgcccctngacagngagtcagctattaagaattatgttactcacttgggacaaactcttaacgttttgcataagtttgcttctancaggagcgctgtgaaccccgcagaagcccgccacccnttccagccnggngatcaagtgctgctgaaggnntggaaggaagcnggnccngcccaacagctacaggagaaatggaaagggccctatgacgtgctgctgaccacccgctcagcantgaaactggcgggcatcaagccntgggtccatcacacgcgagtgaaaaagttcctgccggccaagaaccccgcggcagaggagtcnccggccaccgaatgggagncggaacccctagaagacctaaagtttctgttcagaaaacgataagactttcttttatnatattctttcttnctacgcctnttattgtttctgcncncacctctaaccttttcctacaatgggcacagnattatgcagatagcctacagcaggacncctgctgggtctgtggcctgttacccctctctagcaccncgggnctgccttggtgggtntcacctatgcaagggaangactggntncatttgcaaaccttcntgggaaatctnaaacantggactgggtcacagatgacgggagtaactagggnaaatgtntcagaatggcccataaataaaactttnaacgacccagggcacggaaagccattctcagtaaacgnaacaagggacgangtaatagcnttagctactcccttgctggatncgaaggtgtncgtccagactttnagaccncaaaacgcccantataagaanggctttcttcaaatttgggacggnttcatttggctgacngccnctacnggncacttaagccaaatagcccccttatgctgggagcaangaaaccactcccttgaccactggccnaatgcaactcgagttatgggacggattcccccacacggacagtgccaacatactatagtgctncagcaaagggacttgtttgccacagactggtctcaacggcccggcctaaattggtatgctcccgacggaaccagtggctntgcggcacnaacctntggccntggctnccctcgggntggctaggacgctgcactctaggtctcccantgggcncagggacgctgggtaaaaaccatncgaaanccagccaatctcccacatgtgnttaacaggtggaccaggncngtttttcactggtacgatcatctngccncaatctttntgccctcagtaggcttagaaactgtcatatggcacatagaggccctagcnaattttacncagcgggccctgaatgacagcctccaaagtatttctctnatgaacgctgaaatgtaccatatgcggaaggctatcttgcaaaaccgnatggccctagacatcctnactgcngcccaggggggaacctgcgccntnattaaaactgaatgttgtgtgtatatcccggataactcnggaaacatctccctagccctanaagacatgcaccaacaaattaaagctatgtccgaccccacantgtcnctaaatnantggntngcatcntggttcggtncaggaccntcctggtggcaaaaantnctcgtaatcctggccatgnttgcaggnataggcatanccctntgctgtggantntattgctgttgcatgctgttccaaaacatccctcgagctcatacgtcatgtttcaacaggcaccgcctntaagcccccgaaacnagngaatactnccaagnncaaatagacctcttccactccagtgctannttcggcgccccntgacgacgccccctttcagcaggaagtagccagaangaatacgncaccccatctccctacaattctcatgataataaatatacaagcatgacggaaatcatgcgcaaattgacagtggggat
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 29 15.2 Weakly correlated
2 ZNF766 8 43.0 Weakly correlated
3 ZNF382 5 99.0 Weakly correlated
4 ZIM3 4 87.0 Weakly correlated
5 ZNF558 4 99.0 Weakly correlated
6 ZNF101 4 43.0 Weakly correlated
7 ZNF317 4 99.0 Weakly correlated
8 ZNF680 4 28.9 Weakly correlated
9 ZNF28 4 28.9 Weakly correlated
10 ZNF589 4 28.9 Weakly correlated
11 ZNF679 3 28.9 Weakly correlated
12 ZNF394 3 99.0 Weakly correlated
13 ZNF263 3 180.0 Weakly correlated
14 ZNF75D 3 94.0 Weakly correlated
15 ZKSCAN1 3 160.0 Weakly correlated
16 ZFP37 2 99.0 Weakly correlated
17 ZNF584 2 99.0 Weakly correlated
18 ZNF705B 2 28.9 Weakly correlated
19 ZNF735 2 28.9 Weakly correlated
20 ZNF534 2 19.6 Weakly correlated
21 ZNF506 2 28.9 Weakly correlated
22 ZNF2 2 99.0 Weakly correlated
23 ZNF175 2 94.0 Weakly correlated
24 ZNF554 1 99.0 Weakly correlated
25 ZNF468 1 28.9 Weakly correlated
26 ZNF284 1 43.0 Weakly correlated
27 ZNF597 1 94.0 Weakly correlated
28 ZNF222 1 43.0 Weakly correlated
29 ZNF197 1 99.0 Weakly correlated
30 ZNF18 1 160.0 Weakly correlated
31 ZNF705D 1 28.9 Weakly correlated
32 ZNF141 1 43.0 Weakly correlated
33 ZKSCAN8 1 160.0 Weakly correlated
34 RBAK 1 99.0 Weakly correlated
35 ZNF91 1 6.0 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 24 15.2 Weakly correlated
2 ZIM3 3 87.0 Weakly correlated
3 ZNF101 2 43.0 Weakly correlated
4 ZNF75D 2 94.0 Weakly correlated
5 ZNF141 1 43.0 Weakly correlated
6 ZNF28 1 28.9 Weakly correlated
7 ZNF597 1 94.0 Weakly correlated
8 ZNF2 1 99.0 Weakly correlated
9 ZNF735 1 28.9 Weakly correlated
10 ZNF317 1 99.0 Weakly correlated
11 ZNF506 1 28.9 Weakly correlated
12 ZNF558 1 99.0 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 ZNF723 15.2 Weakly correlated