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 | ZIC1 | 4700 | 4713 | - | 16.57 | TGCCCCCTGCAGTG |
| HERV3 | Clamp | 6635 | 6648 | - | 16.55 | GTGGGAGGGAGAGA |
| HERV3 | USV1 | 7762 | 7771 | + | 16.51 | GCCCCCTGAA |
| HERV3 | TCP23 | 5123 | 5130 | + | 16.36 | GGGCCCAC |
| HERV3 | Stat5b | 1697 | 1705 | + | 16.36 | TTCCCAGAA |
| HERV3 | Znf423 | 174 | 188 | - | 16.33 | AGCCCCTTAGGTTCC |
| HERV3 | NFIC | 1636 | 1650 | - | 16.24 | TTGGCTTCTAGCCAG |
| HERV3 | ZIC5 | 4699 | 4713 | - | 16.13 | TGCCCCCTGCAGTGC |
| HERV3 | SOX14 | 5083 | 5091 | + | 16.11 | CGAACAATG |
| HERV3 | SPL8B | 6730 | 6738 | - | 16.11 | ATAGTACTC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
