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 | Stat2 | 4743 | 4752 | + | 17.16 | GAAACAGAAA |
| HERV3 | CTCF | 88 | 118 | - | 17.10 | CTGAAGTTCTCCCAGGCGGCGCCTGGGGTCA |
| HERV3 | opa | 6645 | 6656 | - | 16.88 | GCCCCCCCGTGG |
| HERV3 | CDF5 | 7709 | 7729 | - | 16.86 | GTCTCTTTTTGTTTCTCCTTT |
| HERV3 | NTL9 | 8368 | 8376 | + | 16.85 | TTAAGTAAT |
| HERV3 | ZIC4 | 4700 | 4713 | - | 16.83 | TGCCCCCTGCAGTG |
| HERV3 | IG1 | 2121 | 2129 | - | 16.76 | CTGCCGCCA |
| HERV3 | ZNF707 | 381 | 395 | - | 16.66 | CCCCACTCCCAGTTC |
| HERV3 | Klf3/8/12 | 5160 | 5168 | + | 16.60 | GCCACGCCC |
| HERV3 | sug | 812 | 823 | + | 16.59 | GACCCCCCAGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
