HERV3
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000169 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 8426 |
| Kimura value | 16.10 |
| Tau index | 0.8209 |
| Description | Internal region of an ERV1 endogenous retrovirus, HERV3 subfamily |
| Comment | The associated LTR is LTR4. |
| Sequence |
TTTCTGGCGAGCCAGCCAGGAGTGGAGACGACAGGTTTGCTGTCTCCTTTGCCTGTGGGNCTGGAGCCCCGGGCCGGGGGAGACCTGTGACCCCAGGCGCCGCCTGGGAGAACTTCAGCCCGGAGGGGAGATCGGCTCTCCCGTGACCCGGCGCCCCTNCCCGGCAGCGCAACGGAACCTAAGGGGCTACAGGACGATTCCAGGAACAGCGCGCTNCAGGACCGCGGTAAGGTTTGGGGCCCAAGGCAGGACCCGTCCCATAAGGACGGAAGGGGAGCCTGATCACCTCCCGGGGTGTANCTAGTAGTCCGACCCAGGAGCTGGGGGCGGCGAGAGTGGCTCGCCAATTCGGATGAAACTTACACCCCAACCAAGAANAGGAACTGGGAGTGGGGAAGTGTGTGAATGCGTGTGAAAGAGGCGGTTCCAGGAGGAGCCAATGCGGGGAGTGACGTGTGGGGCCGCAGGTCTCTTAGCGTGGACCGTACGCTCCGAGCGAAGTGTGGGGCCGACCGGGACTAGTGGCGAACGTCCTCCGNNNCCGCCGCATACGGCTNAGGGAGGCGCCCCACAACTCAGTGATTGTGGTGGTCCGGGTTCGGGGNTNATACGAACCCTCCANTAAAGCTAAGCGGCGTCTGAAAACTCCCGTAAGGGAGACGGTCTAATCGGTCTGAAGCGAAAGTAAAAGAGTGAGTGTGTTGCGCCGTAACTGGGAGGAAATGGGAGGGAAGTCGTCAAAACCCACCCCATTGGAATGCATGTTAAAGAACTTTAAGAAAGGTTNTGCAGGGGATTATGGAGTCAAGTTGACCCCCCAGAGGTTGAGAACTCTCTGTGAATTAGAATGGCCCTCTTTTGGTGTCGGATGGCCGGCCGAAGGAACTATAGATAGGGAAACAATTGGCCGTGTATTTAAGGTGGTGACNGGGGTCGGAGGACAGCCAGGGCACCCAGACCAATTTCCTTATATTGACTCATGGCTAAATATAGTNCAGACNCGACCAGCATGGNTNCAGCCCTGCCTAGCGGCTTATTGCAAAACGCTCGTGGCTCGAGCCGAGCCNAAAGTGAAAGAAAAATCAGCTTCGCCGGCAGCCACGGAGNTAAAGGGAAAGCCACAGGAAGGCAAGAGAAGCCAGTTTTGCAGGAGCCGCCAGAGGAAACAGAAATTCCTCCTCCNTATGTCCCAGCCTACCCCCCTTTACCGAGGCCAACGGCCCCCGAGGAGCCAGATTCAGGNGNTAACACGCCCCAGGTCTCACCCCGAAGGGAAGGATCGGAGCCTCGGGAGGCCAAGGAGGGAAGTCAAGATAGTCAAGCGGGCCGCCTCNGATCTGGCCGCGCCCGAGCTATGCAAATGCCTCTCAGGGAGACGCGAGGACCCGTCTATTATGATGANCAGGGCCANGTCCAAGGGGGGCAACGGACTTTCATCTACCAGCCCTTTTCAACCACTGATCTCCTAAACTGGAAACACCATACTCCCTCCTACACGGAGAAGCCCCAGGCCCTCATAGATCTGATGCAGTCCATCTTTCTGACACACAATCCAACCTGGCCAGACTGCAAGCAGCTCCTCCTGACGCTGTTTAACACCGAGGAGCGCCGGAGGGTGACCCAGGCAGCCCTCCGCTGGCTAGAAGCCAATGCGCCAGAAGGCGCANTTAATGCCCAGGCATACGCTCAGGGCCAGTTCCCAGAAGCAGACCCCNACTGGGACCCAGATGATGCAACCCAGCTTCAGCGTCTGCAGAGGTACCGAGAGGCACTCCTGCAAGGGCTAAGAGANGGCGGAAAAAAGGCAATCAATATAGGAAAGATCTCAGAGGTGCTTCAGGGAGCTGACGAGAGCCCNAGCCAGTTTTATGAGAGACTCTGTGAGGCATTCCGGCTTTACACCCCGTTTGACCCTGAGGCTGCTGAAAATCAGCGCATGGTGAATACGGCATTTGTAGGGCAAGCCCAGGGTGACATCAGGCGGAAGCTGCAGAAGCTAGAAGGTTTCGCAGGCATGAATGCCACCCAGCTTATAGAAGTGGCCACCAAGGTGTACGTTAACCGTGACCAGGAGGCAAAAAGGGAAGCTGATCGGAGGCTTAGGAAAAAGGCCGATCTGCTGGCGGCAGCCCTCACGGAAAGGGAAGCTAGCATCGCGAGGGGACGCGGACGCGGACGCGGACGTGGAAGGGGCCAAGCTGGGCAGAGACCCGAGAGCCGGCCGAGGCTAGANAGGGATCAATGTGCGCGGTGCAAAAAGAAGGGACACTGGAAGGATGAGTGTCCAGAGGGCAATGAAGGAAATGGCCAAGGCCGTGAGACGAGAAGGCCGCCGGCCAAGGGCTGCCGCACCCTGGGGGAACCAGACACCGACCTGATCGGGCTGGCAGGGGCTGAAGGATATGAGGACTAGGACAGACCGGGCTCCNTCTCCTTAGGCCCCCAGGAGCCCATGGTCACATTAGAAGTNGGGGGCCAACTGATGGACTTTATGGTAGACACCGGGGCTGAACACTCGGTAGTGACCCGGCCCATAGGGCCACTATCCAAGAACTATACAACTATTGTNGGGGCTACNGGGGTCCCAGAGAAGAGGCCATTCTGCCGGCCAAGGAGGTGTGTCATAGGAGGACGAGAAGTCCAACATGAATTCCTATACCTCCCAAATTGCCCAGTTCCCTTGCTGGGAAGAGACCTACTCCAAAAACTGCAAGCACAGATTGCTTTTGGGCCGCAAGGGGATATGACTTTAAACCTGACTCACCCAAAGGCCATGGTGTTAACCCTTACCGTCCCGCAGGCTGAGGAATGGAGACTATACGCAAAANAGNCGCCAGAACCGGGANTAAATGAANTGTNTGGGCTACTTAGTAAAATTCCTGGAGTATGGGCTGAAGATAACCCACCCGGGCTGGCTGTAAATCAGGCACCGGTGGTAGTAGAGCTAAAACCGGGAGCAACTCCGGTTCGGGTTCGCCAGTACCCGCTTCCCCGAGAGGCCGTACGGGGCATTCGCAAACACTTAGAGCGGCTCTNCAAACACGGAATCTTAGTCCGATGCCAGTCACCCTGGAACACTCCACTCTTGCCAGTACGGAAGCCAGGGTCTGGTGAATATAGGCCGGTGCAGGACTTGCGTGCTGTAAACCAGGCCACGGTGACCATCCACCCGGTGGTACCAAACCCGTATACTTTAATGGGACTCATTCCGGCAAGTGCCGCCTGGTTTACNNGCCTAGACTTAAAGGATGCNTTCTTCTGTCTCCGCCTGGCACCAATTAGTCAGCCCATCTTTGCATTTCAATGGGACGATTNAGTCACAGGCACAGNGGNGCAGCTCACCTGGACTAGACTCCCACAAGGGTTCAAAAACTCTCCCACAATCTTTGGAGAAGCACTGGCCTCAGACCTCAAGGCCTACACCCCGCCAAATGACAACTGCGCCTTGCTNCAGTACGTAGACGACCTTCTTCTGGCAGCCCCAACCCGAGAGGACTGCTACCAAGGAACCCAAGACCTCCTCCACCTCCTGTGGAAGGCAGGNTATAAAGTGTCCAGGAAGAAGGCTCAAATCTGCCNNGAAAGNGTCAAGTATTTAGGCTTCATAGTAAGCCAAGGGGAACGNCGGCTTGGCAGTGAACGAAAGCAGGCTGTTTGTGCACTTCCNACTCCAACCACCCGGCGTCAAATAAGAGAGTTCTTAGGGGCAGCAGGGTTCTGCCGCATCTGGATCCCAAATTTCTCGCTNATGGCTAAGCCATTATATGAAGCCACAAAGAGGGGGGAAAAGGAGCCCCTCCTCTGGGAGGCCGACCAGGAGAAGGCNTTTAAACAAATCAAAGAAGCCTTAACTCAGGCCCCAGCCTTAGGACTGCCAGATNTAACTAAGCCTTTCTTTCTGTATGTCCACGAGCGAAAGGGAATGGCTATAGGGGTCCTGACTCAAGTCATAGGATCATGGCATCGCCCGGTGGCGTACTTATCCAGGCAATTGGACTCCGTGGCGCTNGGATGGCCTCCTTGCCTTAAGGCACTAGCTGCCACCGCCCTACTGGCACAAGAAGCTAACAAACTGACTCTAGGACAGCAACTGACCATCCGGGTACGCCGCACTCGGTTATAACTTTAATGGACCAGAGAGGGCACCATTGGTTATCAAATCCGAGAATGACTCGGTACCAGGGGCTCCTATGCGAAAATCCCCGCATAACTTTAGAAACNGTGAACACCCTNAACCCGGCTACCTTGCTCCCGATCGAACCGGGAGNCCCCCTTCATNACTGTGTGGANACGGTAGATGAGGTGTTCTCAAGCCGGAGAGATCTNACAGACCGGCCCCTCGGGGACCCGGACGTTGAATACTTCACAGATGGAAGCAGTTTCGTACTAGAAGGGGTCCGCCGAGCCGGGTATGCAGTGGTGACNTTGGACTCAGTGGTAGAGGCNCAGCCTCTGCCTACCGGAACNTCNGCCCAGAAGGCAGAGCTAATAGCCCTGACAAGAGCTCTTTTGCTAGCAAAAGACAAAAAGGTCAATATTTACACNGATTCCAAATATGCTTTTGCCACNTTGCATGTTCATGGGGCTATATACAAAGAAAGAGGACTCTTAACTGCGGAGGGAAAAAGAAATAAAGTACAAGGAAGAAATTCTACAGCTCTTAGATGCTGTATGGGCCCCAAAGAAGGTGGCTGTNATGCACTGCAGGGGGCACCAAAAGGCAGGAACACTAGAGGCCAAAGGAAACAGAAAGGCAGACAGGGAGGCAAAGCGGGCAGCAATGACTACTCCGCATTCTAAAGAGGAAGCCCTAGCTATGCCTCTCCTCCCGGAGNCTCCCCTCCCGGAGATCCCAAGTTACNCTCCAAATGAAAGGGCCTGGTTTGCCCAAGAANCTGGAAANTACATTGAAGGAGGATGGTGGAAATTCTCCGATGGGAGGCTAGCCATNCCTGAAATGGTGGCCCCCAAATTTGTAAAACAATTCCACCAAGGAACTCACATGGGAAAAACGGCACTAGAAACGCTACTAGGACGCCATTTCTATGTGCCACGGCTCACTGCCATCACTCGAGCCGTTTGCGAACAATGTCTAACTTGTGCCCAGAACAACCCACGACAAGGGCCCACTCGGCCCCCCGGGAATTCAGGAAATAGGAGCCACGCCCTGTGAAAACCTGCTTATGGACTTCACCGAACTGCCCCGAGCNGGGGGCTATCGGTACATGCTGGTGCTCGTTTGCACCTTTTCAGGATGGGTCGAGGCTTTCCCCACCAGGACAGAGAAAGCACGAGAAGTGACTAAAGTACTGTTAAGAGACATTATCCCCAGATTTGGACTGCCTCTAACTCTAGGGTCAGACAATGGACCGGCATTTGTAGCTGAAATAGTTCAGGANCTAACACGGCTGTTAAAAATAAAATGGAAGTTACACACAGCCTACCGGCCGCAGAGCTCAGGAAAAGTGGAGCGCATGAACCGGACACTCAAGCAGCTACTGAAGAAATATTGCCAGGAAACTCATCTGAGATGGGATCAGGTCTTGCCCATGGTCCTCCTCCGAGTCAGGTGCACCCCCACCAAACAAACTGGGTATTCGCCCTATGAGATTTTGTTCGGCCGGCCACCCCCAATCATAGGTCAAATTAAAGGTGATCTCCGNGAACTAGGGGAATTAACCTTAAGAAGGCAAATGCAGGCTTTAGGGATAGCCATGCAAAANGTCCATGGCTGGGTACGGGAAAGAATGCCTATAAGCCTGACAGACCCAGCACACCCCTTTAAACCTGGGGACTCTGTTTAGGTTAAGAAATGGAATCCAACCACTCTAGGACCCATATGGGATGGGCCCCATACTGTAATCTTGTCCACTCCCACTGCTGTTAAAGTTGCAGGNATCGTGCCTTGGATCCACCACAGTCGGCTGAAACCGGCAGCCCAGGACAAGTGGACCAGCCAGCAGGACCCAGACCATCCGACCCGGCTGATCCTGCGACGAGACCGAGTTGCCGCTGAGAGACGACGACAGCCCTGCTCTGGTCACTCCGGAAGCTGACCAGTCTACGCACGGCTGAAGCTTGAGGAGACAACAGCCCTGCTCTAGTCACCCCGGAAGCTGACTAGTCTACGCACGGCCGAAGCTTGAGTANTCATCAAGNAAGTAAATGTGGTTAGAAATCTTAAGNCCAGTAGTTTTCCTTGTAATACTAATTGTTTTACTATTGTTCTGTCGCTTTGCTCAACCTCCTCCCCCGGGTAAAGACCTCTTCTGTCCNTGCTGGGTATAAANATGCTACTCTTTACTTNNTTGTTCCGGCGNNCGNNGCTACNNNTTTCCTCCTNATTATGNCACTCCCCTTANCCGTGTCAGAAGAAGAGCCCATAGAAGGGTGCCCCCACTGCACNCACACTACNTGGTCAGGGAGCACNATAACTAGAACCCTGTTGTACCATACTTATTATGAGTGTACAGGGACCCGCCTAGGAACTTGTACTCACAACCAGACGACCTACTCAGTCTGTGACCCAGGAAATGGCCAGCCTTATATATGTTATGACCCCAAGTCCTTACCTGGGACCTGGTTTGAAATTCATGTGGGTCAAAAGAAGGAAACCTTCTAAACCAAACCAAGGTCTCTCCCTCCCACGGGGGGGCTATNTCCTTGTACTTTGATGTTTGCCAGNTAACATCCATGGGCTCAACCTTTCCCGTAATCTCTAGTTCCGNAGAGTACTATAGNAGCTGCCACAAAAATATATGCGCACCCCCTGCTTGCTCCGCCAGGTCCCCAGAAACAGCTTGCTGGGACTGCACAATCGGTCCNCTGACCCGCAATCACCGGGGCCAGTCATGCTTACCAAAATGCCAGCAAAACCAGATTGTAAGACAAGCACTTGCAATCCTGTAAATCTCACCATCTTAAAGCCGGATCTGCCCATATGGACTACAGGTTTANNNGCACCCCGGGANTACAAGTCAGCGGTCAGAAAACNGACCCAGAAGCCTATTTATATATTATCAAGAAANCTCGGACCCGTCCGCCCGANAATTCCAGTCTTTAAGTCATTCTNTGAGCATATNAACCAGAAGTTGCCNGAGCCCCCTCCTTTGCCAGAAACCTATTCGNCGCGNNNCGTTTGCNTGCTCAGCTGGCTGAAAACATNGCCGGCAGCCTAGGCGTCTCCTCATGTTATGTTTGTGGAGGGACCAACATGGGAGACCAATGGCCNTGGGAAGCAAAAGAGTTAATGCCCCAAGATAACTTCACTCTACTGNCTCTTCCCCCGAACCGACGCCCACAAGTTCGAGCGTCTGGCTCTTAAAAACCTCTATTATCGGGAGATNCTGCGTTGCTCGCTGGGGAAAAGCCTTTACAGACCCAGTAGGAGAATTAACCTGCCTAGGACAGCAATATTACAATGAAACACTAGGAAAAACTTTATGGCGGGGCAAAAATAATTCCAAATCGCCCCANCCAAGCCCATTCTCCCGTTTCCCTTCTTTAAACCACTCTTGGTACCAACTTGAAGCTCCAAATACCTGGCAGGCGCCCTCTGGCCTCTACTGGATCTGTGGGCCACGGGCATATCGGCAGTTGCCGGCTAAATGGACAGGGGCCTGTGTACTNGGAACAATTAGGCCGTCTTTCTTCCTAATCCCNCTGNAACAGGGAGAAGCTTTAGGGTACCCCGTCTATGATGAAACTAAAAGGAGAAACAAAAAGAGACATAACCATAGGAAATTGGAAAGACAATNAATGGCCCCCTGAAAGAATAATCCAATACTATGGGCCAGCCACCTGGGCAGAAGATGGGNCGTGGGGATACCGCACCCCTATTTACATGCTCAACCGCATCATAAGGTTGCAGGCAGTGCTTGAAATCATCACTAATGANACNGCAAANGCCTTAGATCTGCTGGCCCAGCAAGCCACAAAAATGAGGAACGCTATCTATCAAAATAGACTGGCTTTAGACTACCTCCTAGCCCAGGAAGGAGGAGTATGTGGAAAGTTCAATCTAACTAATTGCTGCCTAGAAATCGATGACAACGGAAAGGCCATTANGGANATAACTGCAAGAATNCGAAAATTAGCCCATGTTCCAGTCCAGACTTGGAAAGGGTGGTCTCCAGATTCCCTCTTCGGAGGCTGGTTTTCATCCTTCGGAGGATTCAAGACCTTAATAGGAGTAGTTCTGGCCATACTAGGAGNCTGCCTAATACTCCCTTGTCTCTTACCCCTCCTTGTTAGAAGCATTCAATCAGCCATAGAGGCNNTTGTAGCCAGGCAAACTACCACTCAGCTAATGGCTCTAACTAAATATCAACCTTTGCCAAANGAAGAAAACTGCCTCTTCATGAAGAATTAAGTAATAGTGATGCTTTCTATTAAACTTCATTTATAAAAAGCATCAAAGGGGGGAA
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| HERV3 | BPC5 | 7708 | 7737 | + | -35.83 | AAAAGGAGAAACAAAAAGAGACATAACCAT |
| HERV3 | BPC5 | 4738 | 4767 | + | -40.44 | CAAAGGAAACAGAAAGGCAGACAGGGAGGC |
| HERV3 | BPC5 | 4740 | 4769 | + | -41.57 | AAGGAAACAGAAAGGCAGACAGGGAGGCAA |
| HERV3 | BPC5 | 4748 | 4777 | + | -42.23 | AGAAAGGCAGACAGGGAGGCAAAGCGGGCA |
| HERV3 | BPC5 | 7704 | 7733 | + | -42.30 | AACTAAAAGGAGAAACAAAAAGAGACATAA |
| HERV3 | BPC5 | 4744 | 4773 | + | -43.60 | AAACAGAAAGGCAGACAGGGAGGCAAAGCG |
| HERV3 | BPC5 | 7712 | 7741 | + | -44.21 | GGAGAAACAAAAAGAGACATAACCATAGGA |
| HERV3 | BPC5 | 7702 | 7731 | + | -45.60 | GAAACTAAAAGGAGAAACAAAAAGAGACAT |
| HERV3 | BPC5 | 4619 | 4648 | + | -48.72 | AGGGAAAAAGAAATAAAGTACAAGGAAGAA |
| HERV3 | BPC5 | 4736 | 4765 | + | -49.26 | GCCAAAGGAAACAGAAAGGCAGACAGGGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
