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 | opa | 814 | 825 | + | 17.51 | GACCCCCCACAG |
| HERVE | ZNF460 | 7106 | 7121 | + | 17.47 | GTCTACGCCTCCCGAG |
| HERVE | TB1 | 1934 | 1942 | + | 17.38 | GGGCCCCCC |
| HERVE | TB1 | 1962 | 1970 | - | 17.38 | GGGCCCCCC |
| HERVE | NFKB2 | 4436 | 4446 | + | 17.26 | GGGGAATTCCC |
| HERVE | TGA4 | 2295 | 2305 | + | 17.11 | TGACGTCATCG |
| HERVE | Usf | 1196 | 1205 | - | 17.05 | ACCACGTGAC |
| HERVE | cg | 468 | 478 | - | 16.93 | GCACACACACA |
| HERVE | GT-3a | 7706 | 7719 | + | 16.81 | CACGTGTATTATAT |
| HERVE | NFkb | 4436 | 4446 | + | 16.79 | GGGGAATTCCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
