HERVIP10F
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000186 |
|---|---|
| TE superfamily | ERV1 |
| TE class | LTR |
| Species | Simiiformes |
| Length | 7737 |
| Kimura value | 13.62 |
| Tau index | 0.9514 |
| Description | Internal region of ERV1 endogenous retrovirus, HERVIP10F subfamily |
| Comment | HERVIP10F is flanked by LTR10F long terminal repeats; these have 5 bp TSDs. HERVIP10F was an active endogenous retrovirus ~30 Myr ago. There are about 20 copies of the HERVIP10F internal sequence present in the human genome (not the same as a simply tally of fragmented hits). Three ORFs are found in the HERVIP10F consensus. ORF1 encodes gagP71A (~504-2216), a 571aa gag-like protein, closely related to gag proteins encoded by the C-type leukemia retroviruses. ORF2 encodes polIP10F (~2220-5720), an 1167aa polyprotein composed of protease (140aa), reverse transcriptase (517aa), RNase H (140aa) and endonuclease (270aa) domains, respectively. ORF3 encodes envIP10F (~5621-7735), a 705aa and envelope protein most similar to those from leukemia retroviruses. |
| Sequence |
ATTTGGGGGCTCGTCCGGGATTACATTCCCCTCCGGGGGCGGTCTCCGGTCCTCTCTCGTGAGGAGGCGCGCCCCGCCCCCTTGTGGCGGCCTCAGGGGTGAGAAATCGGGACCCACCCGGTGCGAGGAATAACCCGGGCTCTCAGCAACGCGGAAAGAAACTGGCCGGCAACCTAGCTTAAAGGATCCTCACATACCGCGGCGACGACTCTGTGCACAGACCAAGGAAGGAGAAGCCGCGGGAGCCGGTAAAGTATTTCCTTGGTGGTCGGGACCAAGGTAAGAAAGCCGCGGGGGGGCGGTGAAGTACTCCTTGGTCGGGGTGGCTTAGAGGTTAAAAAGAGGCGAGANATCCCCANTGGNGGGGGATTGAGCCTCACACAAACCTCCAGTAGTAGAAAAGGCAAGAAATTTCCAGTGGGGGAAATTGAGCCTCACCCCAAAAGGCGAGAAATTTCCAGTAAGGGAAATTGAGCCTCGAACCTTACCCCAAAACCATCAAGATGGGAAATACCCCAAGCAAGACAGGGAGCAAGGGGGATAAAGATGGTAACAAAGATATCCCCCCGGATAGCCCCCTAGGTCTCATGCTAAAACACTGGAAGGATAATGAAAGGACTAAACATAGGAAAAAGCAACAAATGATAAAATATTGCTGTTTTATTTGGACTCAGGGACCCATCCTCAAACCCTCAATCTTCTGGCCAAAGTTTGGGTCGAATGAGGATGTAATGTGTCAGCTTCTAATCCGATATGTTAATGATAAAAGTCCAGTGTCTCAAGAAGAACTAGGCTATGCCCTTTGTTGGAGGCAAGGACCTGCCCTCCTTTTTCCCTTAAAAACAAATAGGGAAGAACCCAATCTGGCACCTCAAAATGAAAAGTCAGAGGAGCCAGCTCTCATGCCTAAAGACTCCAGCGCATGGGATCCCCTAGACCATCTTCCCCCGCTCAGTGTCCCCAATCTTTCCCCTCAGACAGCCGCTGCCGCCTCAGATCCCGTTCCAAATCCCCCCTCTACTCACGTTATCCCTCCTCCTTATAACCCTGACTCTTGGGAATTACCGTCCCACCAGCCTGTTCCCTCCCAACCTAAATACCCCTCTCTAAAAGGACTCCAGCGTGAGGTAGAACAATGTAAAAAAGATATTCAGAATTTCCCATTTCCCTCCGTACCTAAGGGGTCAGCCCCGACCCTCTTCCCTTTGAAAGAGGTACCACAAGGAGGGGGGGCGNNCGNCATTGGCTTTGTAAATGCTCCCTTAACCAGTTCAGAAGTCCGGAATTTTAAAAAGGAGCTTAAGCCGCTACTAGATGACCCTTACGGAGTGGCAGACCAAATTGACCAATTCTTAGGACCTCAGTTATACACTTGGGTCGAGTTAATGTCCATCTTGGGCATCCTCTTTTCAGGGGAAGAAAGGAGTATGATTCGTAGGGCTGCTATGGTAGTTTGGGAACGTGAGCACCCTCCCGGTCAAAACGTTCCTACCGCGGACCAGAAATTCCCCGCCCGAGACCCCCGGTGGGACAATAACAACGCAGNTCACCGGGAAAATATGCAGGACCTAAGGGAGATGATAATAAAAGGAATTCGGGAATCAGTACCCCGAACCCAAAATCTTTCTAAAGCATTTGATATACAACAGGAAAAGGATGAAGGGCCTATGAGATTCCTAGACAGACTGAGGGAGCAAATGAGGCAATATGCAGGCCTCGATTTGGANGATCCCCTTGGGCAAGGAATGTTAAAACTCCANTTTGTCACTAAAAGTTGGCCAGACATTTCAAAAAAGTTACAAAAGATAGANAATTGGGAAGACCGNCCCCTAAGTGAGCTTCTCAGGGAAGCTCAGAAAGTATACGTGAGAAGGGACGAAGAAAAACAGAAACAAAAGACAAAACTTATGTTNTCCACCTTCCAACAGATGGCTCCAAACCCANGTACTTCTAAACAGAGCTTCCAGGGGGCCAGAAACTATAAAGGGTCCGAACCCTCCTTTAAAGGACCCNAGCCTCCATCTGGAGGACCAAGGCCCTCGTCTACCAGGCCCCCTAAAGAGTATGGGGGAGCAAGGTCAAAGAATCCCAGAACTGAGAGGGAGGAAGGACAAGATAGGTGCTACAGATGTGGAAGAACAGGCCACTTCAAGAGAGAATGTCCCGAACTAAGAAAGGAGAAAGAAGCCCTTCCACTCATGACTTTCGAGGAAGAATAGGGGGGTCAGGGGCTCTGTCTCTTTTATCTTGAGTCCCACCAGGAGCCCTTGATAAATTTGGAGGTGGGACCTAAACATGAGCTTATCACCTTTTTAGTCGATTCAGGGGCTGCTCGCTCCTCTGTTTGTTTCCCCCCATCTAATGTTGCCTNCTCCTCAGAGGAACTTTTAGTCTCCGGGGTAAAAGGGGAAGGATTTAAAGCAAAAATTTTAGAAAGCACAGAAGTTAGATACCAGGATCGATCAGCTCATATTCAGTTTTTGTTAATCCCTGAAGCAGGAACTAATTTACTAGGGAGGGATTTAATGTTAAAGTTAGGCATAGGCCTACAAGTCAGCCCAAGAGGATTCCTCACCTCATTAAACCTACTCACCACTGCAGATGAAAAATATATTAATCCTAATGTCTGGTCCAAAGAAGGAAACCGAGGGAAACTCCGAGTCCCTCCAATCCACATCAAGCTAAAAACCCCCGGGGAAGTAGTAAGGAGGAAGCAATACCCCATTCCCCTAGAGGGCAGGATAGGGTTGAAACCTATAATTGAAGGTCTTATTAAAGATGGGCTTCTCGAGCCCTGTATGTCCCCTTATAACACCCCAATACTGCCAGTCAAGAAATCAGACGGGTCATACCGGCTGGTACAGGACCTTAGAGCTATCAACCAAATAGTCCAGACTACCCACCCCGTTGTCCCCAATCCTTACACCATTCTCAGCAAGATTCCATATAATCATCAATGGTTTACTGTAATAGATTTGAAGGATGCTTTTTGGGCATGTCCCCTGGCTGAAGATAGCCGAGATATATTTGCTTTTGAGTGGGAGGATCCCCACTCAGGGCGGAAACAACAATATCGATGGACAGTCTTGCCCCAAGGGTTCACAGACTCCCCTAACCTTTTCGGTCAAATTTTAGAACAAGTATTAGAAAAAGTTGTCGTCCCAGAACAAATATGCCTGCTCCAGTACGTGGATGATATTCTTATATCTGGTGAAGATATAGAGAAGGTAGCTGGCTTCTCTACACATATTCTTAACCATCTGCAGTTCGAGGGGCTACGAGTCTCAAAAGGAAAGCTTCAGTATGTAGAGCCTGAAGTTAAATATTTAGGCCACTTAATAAGTGCAGGCAAGCGAAGAATAGGGCCTGAACGAGTTGAGGGAATCGTGTCCCTACCCTTGCCTCAAACTAAACAAGAACTCAGGAAATTTTTAGGGTTAGTCGGATACTGCCGCTTATGGATTGACTCATATGCACTAAACAGTAAACTNTTATATCAAAAACTTGCCCAGGAGAAGCCTGACCGTCTCCTGTGGACTTCTGAGGAAGTCGATCAGGTCGAGGAGCTGAAAGAAAGGCTCATAACTGCCCCTGTCTTAGCCTTACCCTCCCTAGAAAAGCCATTCCACCTTTTTGTCAATGTGGACAATGGGGTAGCTTTAGGAGTGCTNACTCAAGAACACGGAGGCCGCCGGCAGCCCGTGGCCTTCCTATCAAAAGTCTTAGACCCAGTNACCCGTGGATGGCCTCAATGCATCCAATCCGTCGCGGCTACGGCANTACTAGTCGAAGAAAGCAGAAAGTTAACCTTTGGAGGAAAATTGACNGTAAGCACGCCCCACCAAGTTAGAACTATCTTAAACCAGAAAGCAGGGAGGTGGCTTACTGACTCAAGAATCTTAAAGTATGAGGCTATTCTGTTAGAAAAAGATGATTTAACATTAACCACTGATAATTCGCTTAACCCAGCAGGTTTCCTAACAGGGGATCCAAATCTAAAGAGAGAGCACACATGTTTAGATTTAATTGATTACCATACAAAGGTCCGACCAGACCTAGGAGAAACTCCCTTCAGGACGGGACGACACTTATTTATAGATGGTTCCTCCCGGGTGATTGAGGGAAAAAGACACAATGGGTATTCAGTAATTGATGGAGAAACTCTCGNAGAAATAGAGTCAGGAAAATTGCCTAATAATTGGTCTGCCCAAACGTGTGAGCTGTTTGCACTCAGCCAAGCCTTAAAGTACTTACAGAACCAGGAAGGAACCATCTATACCGATTCTAAGTACGCCTTTGGAGTGGCTCATACATTTGGAAAAATTTGGACTGAACGAGGTCTCATTAATAGTAAAGGTCAAGACCTTGTTCACAAGGAGCTAATCACCCAAGTATTGAATAACCTTCAGTTGCCAGAAGAAATAGCTATTGTCCATGTCCCCGGACACCAGAAAAGCCTTTCTTTTGAAAGTCGAGGAAATAACCTAGCAGATCAGATAGCCAAACAGGCTGCCGTTTCTTCTGAAACGCCTATTTTTCACTTAACTCCTTACCTTCCTCCTCCTACCGTAATCCCCATTTTCTCTTCCACTGAAAAAGAGAAACTAATAAAAATAGGTGCTAAAGAGAATTCAGAAGGAAAATGGATATTGCCAGACCAGAGAGAAATGTTATCCAAACCCCTTATGAGGGAAATCTTGTCCCAACTGCATCAAGGGACCCACTGGGGGCCCCAAGCCATGTGTGACGCAGTTCTCAGAGTTTATGGGTGTATAGGAATTTATACCCTGGCCAAACAGGTTACAGACAGTTGCTTAGTATGTAAGAAAACTAATAAACAAACTATAAAAAGATTACCCCTTGGGGGAAGGAGTCCAGGCTTAAGGCCATTCCAAAGTATCCAGATTGATTACACAGAGATGCCTCCAATAGGTCGTCTAAAATATTTACTAGTGATAGTAGATCACCTCACTCACTGGGTCGAAGCTATTCCCTTTTCAAATGCGACGGCCAATAATGTAGTTAAGGCNTTAATTGAAAATATAGTACCCAGGTTTGGACTAATAGAAAACATTGACTCAGACAATGGAACCCATTTCACCGCACACGTCATTAAAAAGCTANCCCAAGCACTAGACATNAGATGGGAATACCATACTCCCTGGCACCCACCTTCATCAGGGAGAGTAGAAAGAATGAACCAGACTCTAAAGAACCACTTAACCAAATTAGTCTTAGAGACTCGGTTGCCATGGACCAAATGCCTTCCTATTGCCCTGTTGAGAATCCGAACTGCCCCNCGGAAAGATATTGGCCTNTCCCCTTATGAGATGCTCTATGGATTGCCTTATTTACACTCCACTGCTGACATTCCTACNTTTGAAACAAAAGATCAGTTTCTCAGAAATTATATACTTGGTCTATCTTCCACTTTCTCTTCCCTCAGAACTAAAGGTCTTTTAGCACAGGCGCCACCCCTGGAGTTCCCAGTACACCAACATCAGCCTGGGGATCACGTCCTCATCAAAAGCTGGAAAGAGGGAAAGCTCGAGCCGGCCTGGGAAGGACCTTACCTAGTGCTCCTAACTACCGAAACCGCAGTCCGGACAGCAGAAAGAGGATGGACCCATCACACCCGAGTCAAGAAAGCGCCGCCCCCTCCAGAGTCATGGGCCATNGTCCCAGGGGAAAACCCTACCAAACTAAAGCTAAGAAAAGTTTAACTCTCTTTCATCTATTCTATTACTCTTTCTTCTTTCCTCGCTCTATCGCTGACCACCTNGTTATTAACGTAACCAAGTCAATTTCGCCTCAAACTATTACATTTGATGCTTGCCTTGTTATACCCTGTGGAGACTTGCCAAGTCAAAGGCAGCTCTCCACTTCAGAAAAGTACCTCTGTCCTTCCTGGCTCTCCTCAGACTGGGCATTAGTGAATTGGGATCATTTAGTCTGGGAAGATTTCGATGAAGACCCCAGTGTCAACCGGGAGTCTTGCCCCCCCGACGCAGAGCTTTTATGCCGTAGTTGGTCCAACGTTCTGTGGACCACCAAAGAGCAAGGATGGACTGCCCCAACCAGTANTTGTAATTTCCTAAAACCATACATTCATTTTACTAAAGGAACAGCCCCCCCCAACTGTCAGCTAAACCAGTGCAATCCAATACAGGTTATTATCTCGANCCCCCAAAGTTCTTCCCCTTCTCTAAGCCGGTTCCCTTCTTTAAGCCGNTTCTATGGTATGGGGGCTGAGGTTTCAGGAACGGACCCTATNGGATCCTTTGAAATGCGCTTCATTGCTCCCCCACCGCCTGCACCTCCCTCTAAGCCTTCTTCCAAAACCTCTCACAACGAAACCGTCGTTCCTCCTCCACCCAATGACAAGACCAAGGTAGCTATTGTAGAAGTTAAAGACTTAAAACAAACTTTGGCAATTGAGACAGGATATCAAGATGCAAATGCCTGGTTGGAATGGATCAAATATTCCGTCCGCACGTTAAACAAAAGCAATTGTTACGCTTGTGCGCACGGCAGGCCAGAGGCCCAGATTGTCCCCTTTCCACTAGGGTGGTCCTCCAGTCGACCGGGCATGGGCTGTATGGTAGCTCTTTTCCAGGATTCCACAGCCTGGGGTAACGAGTCGTGCCAAGCTCTCTCTCTGCTATATCCCGAAGTCCGACACCCTGCGGGTCAGCCCCCGAGGGCCATCCAGCTTCCGTCTCCCGACGCTAAGTTCACTTCGTGTCTCTCACGACAGGGAGGAAACTTAGCGTTCCTTGGAGACCTAAAGGGATGCAGTGAGCTTAAGACTTTCCAAGAGCTTACCAATCAGTCAGCCCTTGTTCATCCCCGAGCGGATGTGTGGTGGTATTGTGGTGGACCTTTACTGGACACTCTGCCAAGTAACTGGAGCGGCACTTGTGCTCTAGTCCAATTGGCTATCCCTTTCACCCTGGCATTTCATCAACCAGAGAAAGGAAAAATACGACATCGTAAAGCGAGAGAAGCCCCTTATGGGTCTTTCGACTCTCACGTTTATTTAGACGCAATTGGAGTCCCACGGGGAGTACCAGATNAATTTAAAGCCCGAGATCAAATAGCTGCAGGATTTGAGTCAATATTTTGGTGGGTGACAATTAATAAAAATGTAGATTGGATAAATTACATCTATTACAACCAACAGCGGTTTATTAACTACACTAGAGATGCTGTTAAAGGAATAGCTGAGCAATTAGGGCCTACTAGCCAGATGGCTTGGGAAAATAGAATAGCCCTAGACATGATATTAGCNGAAAAAGGNGGAGTTTGCGTCATGATTAAAACTCAATGTTGTACCTTCATCCCAAACAACACCGCCCCCGATGGAAGTATAACAAAGGCNTTGCAAGGNCTNACCGCTCTATCCAATGAGTTAGCCAAAAACTCNGGGGTAAATGACCCCTTTACAGGATGGCTAGAAAAGTGGTTCGGTAAATGGAAAGGAATCATAGCCTCAATTCTTACTTCCCTCGCAGCCGTAATAGGTGTACTCATTCTTGTCGGGTGCTGTGTCATACCATGCATCCGTGGGCTGGTGCAAAGGCTCATAGAAACGGCACTTACTAAAACCTCCCTTAGCTNTCCTCCACCTTATTCAGANAAGCTTCTTCTTTTAGAGGATCAAGCAGAACAACNAAGCCAAGACATGTTAAAAAAGTTTGAAGAGAAAGCTGTAAGAAAANTGCAAGAGGAGGAAAT
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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 |
|---|---|---|---|---|---|---|
| HERVIP10F | lmd | 289 | 300 | - | 17.28 | GCCCCCCCGCGG |
| HERVIP10F | KLF14 | 72 | 80 | - | 17.26 | GGGGCGGGG |
| HERVIP10F | gsb | 4024 | 4033 | + | 17.18 | TAATTGATTA |
| HERVIP10F | MAF::NFE2 | 7544 | 7554 | - | 17.00 | ATGACACAGCA |
| HERVIP10F | KLF5 | 71 | 80 | + | 17.00 | GCCCCGCCCC |
| HERVIP10F | ZNF257 | 3396 | 3405 | - | 16.99 | GAGGCAAGGG |
| HERVIP10F | ZNF93 | 979 | 992 | - | 16.90 | GGCGGCAGCGGCTG |
| HERVIP10F | ZNF740 | 6129 | 6138 | + | 16.79 | CCCCCCCCAA |
| HERVIP10F | Nfe2l2 | 7544 | 7554 | - | 16.70 | ATGACACAGCA |
| HERVIP10F | MAFG::NFE2L1 | 7544 | 7554 | - | 16.70 | ATGACACAGCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
