HERVE
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000174 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Catarrhini |
| Length | 7813 |
| Kimura value | 6.13 |
| Tau index | 0.9707 |
| Description | Internal region of an ERV1 endogenous retrovirus, HERVE subfamily |
| Comment | Associated long terminal repeat is LTR2. The gag and pol genes are ~40% similar to Moloney murine leukemia virus (MoMuLV). Some unique characteristics of the endogenous human retroviral DNA included a tRNA Glu primer binding site separated from the 5' LTR by a pentanucleotide and a putative env sequence which does not appear to overlap the C terminus of pol and has virtually no homology with the env gene of known infectious retroviruses. The reconstructed (though still pseudogenic) gene boundaries are: Gag: 571-2094, Pol: 2095-5655, Env: 5678-7750. |
| Sequence |
TTTCTTGGTTCCCTGACCGGGAAGCGAGGTAATTGACGGACGGTCGAGGCAGCCCCTTAGGCGGCTTAGGCCTGCCCTGTGGAGCATCCCTGCGGGGGACTCCGGCCAGCTTGAGCGACGCGGATCCTGAGAGCGCTCCCGGGTAGGCAATTGCCCCGGTGGAACGCCTCGTCAGAGAGTGCGTGGCAGGCCCCCGTGGAGGATCAACGCAGTGGCTGAACACCGGGAAGGAACGGGCACTTGGAGTCCGGACATTTGAAACTTGGTAAGACTGGTCTTTGGAACTTGCCCACTCCATTTGAGTGGAAGCGTGGCCTGATCACCCACGGCGTGCCTGTACCGGCACTTTGGTTTTTGTTTTTGACTTGACTTGAATTGCTTGATACTTTGGTTTTGGTTTGACCTGGCTTGGATTTCTGGATACTCTGATTTTGGTTTTGATTCTGGTTTGGTGAAAACTGAAAAAGTGTGTGTGTGCCCTTTTTACCCATTCTTTGTTCTGTGGTGTGCGTGTGGTGTGAGCTTGGTGTTTTGTCTCGAGGAAACGTGGGTCAGACACAAAGTAAGCCTACTCCGCTAGGAACTATGTTGAAAAATTTTAAGAAAGGATTTAATGGAGACTATGGGGTTACTATGACACCAGGGAAACTTAGAACTTTGTGTGAAATAGATTGGCCAACATTAGAAGTGGGTTGGCCATCAGAAGGAAGCCTGGACAGGTCCCTTGTTTCTAAGGTATGGCACAAGGTAACTGGTAAGTCAGGACACCCAGACCAGTTCCCATACATAGACACTTGGTTACAGCTGGTGCTAGACCCCCCACAGTGGCTAAGAGGGCAGGCAGCAGCAGTGCTAGTAGCAAAGGGACAGATAGCCAAGGAAGGATCCCGCTCCACCCGCCGAGGGAAATCAACTCCTGAAGTTCTGTTCGACCCAACATCAGAAGATCCATTGCAGGAGATGGCACCAGTGATCCCAGTGGTGCCCTCCCCTTACCAGGGAGAGAGGCTCCCCACTCTTGAGCCCACAGTGCTTGCGCCTCCGCAAGACAAACATATCCCTAGGCCACCCAGAGTAGACAAGAGAGGAGGTGAAGACTCGGGAGAAACCCCTCCCTCGGCAGCTCGTTTACGACCCAAAACGGGGATACAAATGCCCCTGAGAGAGCAGCGGTATACTGGGATAGATGAGGATGGTCACGTGGTGGAGAGGCGTGTTTTTGGGTACCAGCCCTTCACCTCCGCCGACCTTCTCAACTGGAAAAACAATACCCCGTCCTATACCGAAAAGCCACAAGCCCTAATTGATTTGCTCCAAACTGTTATCCAGACCCACAACCCCACCTGGGCTGATTGCCACCAGTTGCTCATGTTCCTCTTTAACAGAGATGAAAGGCGGAGAGTGCTCCAAGCAGCAACTAAGTGGCTAGAGGAACATGCACCAGCTGATTATCAAAACCCCCAAGAGTATGGAAGGACCCAGTTACCAGGAACCGACCCCCAGTTGGACCCACATGAAAGAGAGGATATGCAAAGGCTAAACCGAGACAGGGAAGCTCTCTTGGAAGGATTAANGAGGGGAGCTCAGAAGGCCACAAACGTTAACAAGGTCTCTGAGGTCATTCAGGGAAAAGAAGAAAGTCCAGCACAATTCTACGAGAGACTGTGTGAGGCCTATCGTATGTATACTCCCTTTGATCCCGATAGCCCTGAAAATCAGCGCATGATTCACATGGCTTTAGTCCGTCAAAGCGCAGAAGACATGAGAAGAAAACTGCAGAAACAGGCTGGGCTTGCAGGGATGAATACATCACAATTACTAGAAATAGCTAGCCAGGTGTTTGTAAACAGGGATGCAGTAAGCCGTAAGGAAANCGCAAAGAGAATGGAGGTCAGGCCCGGCGAAACGCGCCTGTTAGCTGCAGCAATCAGAGGGGCCCCCCCAAANGAGGCAAGGNNGAAGGGGGGCCCTGGGAAAGAAACTCAGCTTGGCTGTCAGAGTTTGCAGCGTAACCAGTGTGCTTATTGTAAAGAAATAGGACAGTGGAAGAACAAATGCCCTCAGCTCAAAAGAAAACAAGGTGACTCAGAGCAGGAGGCCCCGGACAAGGAGGAAGGGGCCCTGCTCAACCTGGCAGAAGGGTTATTGGACTGAGGGAGACCGGGCTCAAGCGTCCCCAAAGAGCCTCTGGTCAGAATGACAGTCGGGGGTAGAGACATTGATTTTCTTGTAGATAGCGGTGCTGAACATTCGCTAGTAACCGCCCCGGTCGCCCCCTTATCCAAAAAGACTATTGACGTCATCGGAGCCACGGGGGTTTCAGCAAAGCAAGCTTTCTGCTTGCCTCGGACTTGTACTGTAGGAGGACATAAAGTCATTCATCAGTTTTNGTACATGCCTGACTGTCCCTTGCCCTTNTTGGGAAGGGACTTGCTCAGCAAGCTGAGAGCCACTATCTCTTTGACAGAGCACGGCTCTTTGCTGCTAAAGTTACCCGGAACGGGAGTCATTATGACCCTTACGGTCCCCCGAGAGGAGGAATGGAGACTTTTCTTAACTGAGCCGGGCCAAGAGAGAAGACCAGCTCTGGCTAAGCGGTGGCCAAGAGTACGGGCGGAAGACAACCCTCCGGGGTTGGCAGTCAACCGAGCCCNCGTACTCGTNGAAGTTAAGACTGGGGCCCAGCCGGTTAGGCAAAAACAGGACCCGGTCCCCAGAGAAGCTCTTCAAGGTATCCAGGTCCGTCTCAAGCACCTAAGAACTTTTGGAATTATNGTTCCTTGTCAGTCTCCATGGAACACTCCCCTCCTGCCTGTTCCCAAGCCACGGACCAAGGACTACNGGCCGGTACAGGATTTGCGCTTGCTTNATCAAGCTACACTGACTTTACATCCAACAGTACCTAACCCGTCCACATTGTTGGGGTTGCTGCCAGCTGAGGACAGCTGGTTCACCTGCTTGGACCTGAAAGACGCTTTCTTTCCTATCAGATTAGCCCCTGAGAGGCAGAAGCTGTTTGCCTTTCAGTGGGAAGATCCGGAGTCAGGTGTCACTACTCAGTACACTTGGACCGGGCTTCCCCAAGGGTTCAAGAACTCCCCCACCATCTTCGGGGAGGCGTTGGCTCGAGACCTCCAGAAGTTTCCCACCAGAGACCTAGGCTGCGTGTTGCTCCAGTAGGTTGATGACCTTCTGCTGGGACACCCCACGGCAGTCGGGTGGCCAAGGGAACGGATGCCCTACNCCGGCACCTGGAGGACTGTGGGTATAAGGTGTCCAAGAAGAAANGCTCAGATCTGCCGACGGCAGGTACGTTACTTGGGATTTACTATCCGACAGGGGGAACGCAGCCCGGGATCAGAAAGAAAGCAGGTCATTTGCAATCTACCGGAGCCTAAGAGCAGAAGGCAGGTGAGAGAATTCTTAGGAGCTGTGGGGTTTTGTAGACTGTGGATCCCAAACTTTGCAGTATTAGCCAAGCCTTTGTATGAGGTCACAAAGGGGGGGGACCGGGAACCTTTGGAATGGGGATCCCAACAACAGCAAGTCTTTCATGAGTTAAAGGAAAAACTTCTGGCAGCCCCAGCCCTGGGGCTACCCGATCTGACAAAGCCTTTTCCATTGTATGCGTCAGAGAGAGAAAAGATGGCAGCTGGACTTTTAACCCAAACTGTGGGGCCCTGGCCGAGGCCGGTGGCCTACCTCTCTAAACAACTAGACGGGGTTTCTAAAGGATGGCCCCCCTGTTTGAGGGCCTTGGCAGCAACTGCCCTGCTAGTACAAGAAGCAAATAAGCTGACTCTTGGGCAAAACCTGAACATAAAGGCCCCCCATGCTGTGGTGACTTTAATGAATACTAAAGGACATCATTGGCTAACGAATGCCAGACTCACCAAGTACCAAACTTTGCTCTGTGAAAATCCCCGTATAACCATTGAAGTTTGTAACACCCTACACCCCGCCACCTTGCTCCCGGTATCAGAGAGCCCTGTCGAGCNTGATTGTGTAGAAGTGTTGGACTCAGTTGACTCTGGGCATCAGTAGACTGGGAACTATACGTGGATGGGAGCAGCTTCNTCAACCCCCAAGGAGAGAGAGGTGCAGGGTATGCGGTGGTAACCCTGGACACTGTTGTTGAAGCCAGATCGTTGCCCCAGGCCACTTCAGCCCAGAAAGCTGAACTCATTGCTTTCATTCGGGCCTTAGAACTCAGTGAGGGTGAGACTGTCAACATTTACACTGATTCTCGGTATGCCTTTTTAACCCTTCAAGTGCATGGAGCGTGATAGAAAGAAAAGGGCCTATTGAACTCTGGGGGAAAAGACAGAAAATATCAACAAGAAATCTTGCAATTATTAGAAGCAGTATGGAAACCCCACAAGGTGGCAGTTATGCATTGCAGAGGACACCAGCGAGCTTCCACCTTGCTGGGTTTGGGGAATTCCCGCGCTGACTCAGAGGCTCGAAAAGCAGCATCTGCCCTTCCGGGCATCAGTGACAGCCCCCCTGCTCCCTCAAGCACCTGATCTTGGACCTACTTNTTCTAAAGAAGAAAAGGACTTTCTCCAGGTAGAGGGAGGACAAGTGATGGAGGAAGGATGGATTCGGTTACCAGATGGGAGAGTAGCTGTGCCACAGCTGCTAGGAGCTGCAGTTGTACTGGCTGTGCANGAAACCACCCATCGAGGTCAGGAGTCACTGGAAAAGTTGTTAGGCCGGTATTTCTACATCTCGCNTTTGTCAGCCCTTGCCAAAACGGTGAGGCAGCGGTGTGTTACCTGCCGACAGCATGATGCGAGGCAAGGTCCAGCCGTTCCGCCCGGCATACGAGCTTATGGAGCAGCCCCCTTTGAAGATCTCCAGGTGGACTTCACAGAGATGCCAAAGTGTGGAGGTAACAAGTATTTACTAGTTCTTGGGCGTACCTACTCTGGGTGGGTGGAGGCCTATCCAACACGAACTGAGAAAGCTCGTGAAGTAACCCGTGTGCTTCTTCGAGATCTGATTCCTAGATTTGGACTGCCCTTACGGATCGGCTCAGATAACGGGCCTGCGTTTNTGGCTGNCTTGGTACAGAAGACGGCAAAGGTATTGGGGATCACACGGAAACTGCATGCCGCCTCCCGGCCTCAGAGTTCCGGAAAGGTGGAGCGGATGAATCGGACTATCAAAAATAGTTTAGGGAAAGTATGTCAGGAAACAGGATTAAAATGGATACAGGCTCTCCCTATGGTATTATTTAAAATTAGATGTACCCCTTCTAAAAGAACAGGATATTCCCCTTATGAAATATTATATCATAGGCCCCCTCCCATATTGCGGGGACTTCCAGGCACTCCCCGAGAGTTAGGTGAAATTGAGTTACAGCGACAGCTACAGGCTTTAGGAAAAATTACACAAACAATCTCAGCCTGGGTAAATGAGAGATGCCCTGTTAGCTTATTCTCCCCAGTTCACCCTTTCTCCCCAGGTGATCGAGTGTGGATCAAGGACTGGAACGTAGCCTCTTTGTGCCCACGGTGGAAAGGACCCCAGACTGTCGTCCTGANCACTCCCACCGCTGTGAAGGTAGAAGGAATCCCAGCCTGGATCCACCACAGCCGTGTAAAACCTGCAGCGCCTGAAACCTGGGAGGCAAGACCAAGCCCGGACAACCCTTGCAGAGTGACCCTGAAGAAGACGACAAGCCCTGCTCCAGTCACACCCGGAAGCTGACTGGTCCACGCACGGCCGAAGCATGAGGAAGCTCATCGTGGGATTCATTTTTCTTAAATTTTGGACTTATACAGTAAGGGCTTCAACTGACCTTACTCAAACTGGGGACTGTTCCCAGTGTATTCATCAGGTCACCGAGGTAGGACAGCAAATTAAAACAATCTTTCTGTTCTATAGTTATTATGAATGTATGGGAACATTAAAAGAAACTTGTTTGTATAATGCCACTCAGTACAAGGTATGTAGCCCGGGAAATGACCGACCTGATGTGTGTTATAACCCATCTGAGCCCCCTGCAACCACCGTTTTTGAAATAAGAATAAGAACTGGCCTTTTCCTAGGTGATACAAGTAAAATAATAACTAGAACAGAAGAAAAAGAAATCCCCAAGCAAATAACTTTAAGATTTGATGCTTGTGCAGCCATTAATAGTAAAAAGCTAGAAATAGGATGTGGTTCTCTTAACTGAGAAAGGAGCTANAGAGTAGAAAATAAATATGTTTGTCATGAGTCAGGGGTTTGTGAAAATTGTGCCTATTGGCCATGTGTTATTTAGGCTACTTAGAAAAAGAACAAAAAGGACCCGGTTCATCTTCAGAAGGGGGAAGCCAACCCCTCCTGTGCTGCCGGTCACTGTAACCCACTAGAACTAATAATTACCAATCCCCTAGATCCCCGTTGGAAAAAGGGAGAACGTGTAACCCTGGGGATCGATGGGACAGGGTTAAACCCCCAAGTTGCCATTTTAATTAGAGGGGAGGTCCACAAGCGCTCTCCCAAACCAGTATTTCAAACCTTTTATGAGGAGCTGAATCTGCCAGCACCAGAACTTCCGAAAAAGACAAAAAATTTGTTTCTCCAATTAGCAGAAAATGTAGCTCATTCCCTTAATGTTACTTCTTGTTATGTACGCGGGGGAACCACTATCGGAGACNGATGGCCTTGGGAAGCCCGAGAGTTGGTGCCTACTGATCCAGCTCCTGATATAATTCCAGTTCAGAAGGCCCAAGCTAGCAACTTCTAGGTCCTAAAAACCTCAATTATTAGACAATACTGTATAGCTAGAGAAGGGAAAGACTTTATCATCCCTGTAGGAAAGCTTAATTGTATAGGACAGAAGTTGTATAACAGCACAACAAAGACAATTACTTGGTGGGGCCTAAACCACACTGAAAAGAATCCATTTAGTAAATTTTCTAAATTAAAAACTGCTTGGGCTCATCCAGAATCTCATCAGGACTGGACGGCTCCCGCTGGACTATACTAGATATGTAGGCACAGAGCCTACATTCGGTTACCTAATAAATGGGCAGGCAGTTGTGTTATTGGCACTATTAAGCCGTCCTTTTTCTTATTACCCATAAAAACGGGTGAGCTCCTAGGTTTCCCTGTCTACGCCTCCCGAGAAAAGAAAGGCATAGTTATAGGAAACTGGAAAGATAATGAGTGGCCCCCTGAAAGGATCATNCAGTATTATGGGCCTGCCACATGGGCACAAGACGGCTCATGGGGATACCGAACCCCCATCTACATGCTCAATCGGATCATACGGTTGCAGGCCGTCTTAGAAATAATTACTAATGAAACTGGCAGAGCTTTGACTGTTTTAGCTTGGCAAGAAACCCAAATGAGGAATGCTATCTATCAGAATAGACTGGCCTTAGACTACTTGCTAGTAGCTGAAGGAGGAGTTTGTGGAAAATTTAACTTAACCAATTGCTGCCTACAAATAAATGATCAAGGACAGGTGGTTAAAAACATAGTCAGGGACATGACAAAGGTGGCACATGTGCCTGTACAGGTTTGGCACGAGTTTAATCCTGAGTCTTTATTTGGAAAATGGTTTCCAGCTATAGGAGGATTTAAAACCCTCATTGTAGGTGTATTGCTAGTGATAGGAACTTGCTTGCTGCTCCCCTGTGTATTACCCTTGCTTTTTCAAATGATAAAAGGTTTTGTTGCTACTTTGGTTCATCAGAAAACTTCAGCACACGTGTATTATATAAATCACTATCGCTCTATCTCACAAAGAGACTCAAAAAGTAAAGATGAGAGTGAGAACTCCCACTAAAAGTGAAAATNCTCAAAGGGGGGAAAA
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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 |
|---|---|---|---|---|---|---|
| HERVE | BPC5 | 7747 | 7776 | + | -41.77 | AGACTCAAAAAGTAAAGATGAGAGTGAGAA |
| HERVE | BPC5 | 2194 | 2223 | + | -43.07 | AGAATGACAGTCGGGGGTAGAGACATTGAT |
| HERVE | BPC5 | 4280 | 4309 | + | -44.24 | AGCGTGATAGAAAGAAAAGGGCCTATTGAA |
| HERVE | BPC5 | 7743 | 7772 | + | -44.70 | AAAGAGACTCAAAAAGTAAAGATGAGAGTG |
| HERVE | BPC5 | 467 | 496 | - | -46.91 | AAAGAATGGGTAAAAAGGGCACACACACAC |
| HERVE | BPC5 | 7714 | 7743 | - | -48.57 | TGTGAGATAGAGCGATAGTGATTTATATAA |
| HERVE | BPC5 | 5350 | 5379 | + | -49.22 | GGTGAAATTGAGTTACAGCGACAGCTACAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
