HAL1M8
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000156 |
|---|---|
| TE superfamily | L1 |
| TE order | LINE |
| Species | Eutheria |
| Length | 2991 |
| Kimura value | 24.80 |
| Tau index | 0.9393 |
| Description | L1 retrotransposon, HAL1M8 subfamily |
| Comment | About 1000 23% substituted copies in Laurasiatherian reconstruction. |
| Sequence |
GGAGGATTCTGGGAAGATGGCGGCGGCGGCGGCATAGTTTTTGAATCTCCCCGAATCCCCACATAAAAACAGACAGAGCAACTAGATAGCAAAACCAAAAACCCATGGACAACATTTACAACAAAACTAGGTGACAAGGTATCCCCACGAACCCCAAAATACAAGCGGGTGGGGACAAACCACCAACAGCCACAAGACCTGCATGGTATCGGCGTCTGTGCGGGAGGAAGCAGAGGGAAGCAACGGGGCGTCTGACGGACCTGAGAACAGGAGAACCCCAAAATAGCCAACAGGTATTCACTGGAAAGCGCGGCGGGCCAATTTGAGAACAGCAGCTGAAACTGGGAGGGGTTTTGCCCACTCCAATAGCGGGTGAGTGCAAGGGGCCCGCGGTAAGGTCTGAAGGGGCTGGAGCAGTCTAGCCCCTATGAACTCTCGAAACTGACCNGCCAGGGCTCCCTTCCAGGACAGGGCCCCACACTGAGGAGAAACTGCTGGGAGTGGAATCAAAATTGAGCAGGACAGGGACAACAGAGACGAAGGAAAGAGAAGGTCCAGATAAAAGTGGGGGAGGGGAACAGAGCCAGGAAATCTCAGAAAGCAAGCCGCCATATTTTTGAACACTACACGAAAACAACAGAAGAGGGAGCTCTGTGAAGTTAGAAAAGCTATCCTGAACCACGCCTCCTTCTAAAAGTTCAGGAAAACTAATTTCACATAAAAATGAGCAACAGAAAAGTATCGAGGTCAAATCCCATACAAAGTTATTATAAGAAAAAAGAGAATAAGGAGCAGAATAACATCCCTACAGACAATGAAAGCACGCCAGAAAGACATGCCCACAAAACAGATCAAAACTGTAACCTACTATTTCAAAACGAGCTAAAAGACATTAAGAAAATGATACAAGACATGAAAGAACAACATAAATCAGAATTAGAAAAACTCAGAAATGAGGTGACAGAACTCAGGAAAGAATTAGAAATAAAAGAAAAAATCATTTCAGAAATGAAGACTAAACTAGAAGGAACACAAGAGCGAATAAACACAACAGATAATGCCTTAAGAGAAATAGAAGGTGAAAAGGAGGAAAATTTTAAAAATCAAAAAGAAATGAAGAAAGAGATAAAAAGGATTCGAGAGAAAGTGACAAATATTGAAGATAGGCAAAGAAGATCCAACATACGGATAATAGGAGTCCCTGAAGAAGAAAACCAAAGCAAGGGAACAGAACAAATACTAAAAACTATAATTCAAGAAAACTTTCCTGAAATAAAAAAAGATTTGAAACTACATATTGAAAGAGCACACCGCGTACCTGAGAATATCGACCCAGAACGACCAACACCAAGACATATTCTAGTAAAATTACTGGACTTTAAAGAAAAAGAAAAAATCCTTTGGGCATCTAGGCAAAAAGAGCANGTGACTTATAAGGGAAAGAAAATTAGATTATCATCAGACTTTTCGACAGCAACGCTTTATGCCAGAAGAAAATGGAGTAACATATTTAAGATACTCAAGGAAAGAAAATGTGAGCCAAGGATTTTATATCCAGCAAAACTGACTTTCAAGTATAAAGGGCACAGACAAACTGTTATCAACATGCAAGAACTCAGGGAATATTGTTCCCATGAGCCCTTCCTGAGGAATCTACTAGAGAACGAGCTTCAGACAACCAAAATGACTAGAGAGACATCGACATAAGGACTGGTGGTGAGCATTAAATATATAGTTACTTGTAGAACTAAGACTAAATGAGGGTTAAAAGGGAGAGAGTATAGTATGTAATGGCTATATGCTCTGACAATGTAGATATAGTACAACTATTAAAAAATGGGAGGAGAGAATGGGGAGAGCATATGCAAAAAAATTTTTAACTGTTTTCAGTAATCATATTGGTGGTGGTAGTATTAGTATTGTTATTCTGAGACTGTTGTGTGTGTAATGTGGGATAAAGCAAATGAGTAATTATGGGATATTCTAATTCTATCATCCCCTGTGTCCTTGAGAACCAGGATTCTCGGTGTGGAAGAAAGGAGATACAGATGTAATATAGAAGAGGTTAAGTAAAAACCCTGTAGTCCTGAATTTGAATTGGAAGTATCAGTATGAACTCATGAGGTATTTTATCTTTAAAAATATATATGTATTTCCTAGCTCTGTCCACTGAAAAGGCCTAGAAACAATGACCAACCCAGTAGCAATGAGCATCCCTAGCGCCCAGATTGTGGTCTTGAAATACCATTTCCCACTAAAAGAAACCAGGGCTTCTTGGAGAAATGGCTGATTCCAGGTCTGGGGCAGGAAATGTACAAGATGAGCCTGGAACATCTTGTCATACCAGATAGCAAGGAAGCTATCAAAGACTACTAGGGTCATGTCAAAAGGACTCAGGAGCCAACTTGAAGAGGCTCCCACTGGCCAAAGATGGGACAATTTGAGCTTCAATAAGGATAATAATTGCAATGGATTGAAACCCATCAAATATGTTTAAATCCATGAGTTCATAATGATATAAATAAATAATTGAATAAATAAATAAATGGTAGAGAAGGGAAGCGTCTCTTTATAGAAGTATTCCAGCTAATAAATGAAAAAGAAATGATAGAATTAGAATATCACCATTTTGCAACCCCCAATGAATTAATGGATCTAGGCATTGAGCATCAACGGCTGCTAACATCACAAAAAGAGAGACAACCAGACATTATGTGCCTCCTGATGAAAGAACACANCACCACCTATAGTCTTGCCAAAGGGATCGAACCTGAGTCTGATCAAGCCTCTGGATCCAGCTGCCAATTTGCAGGAAATACAGAGGACAGAGGAACATGTTGAACTGCACCATGAGTATGCAATCAGCAAAATCCAGACTGTGGGAAACTCTACAGGTCAAACGGCCCGGGTTCTTCAACAGATAAATTGTAAGGAAAAGAAAGGGATGGAGGGGGAACCTGTAGATTAAAAGAGACTTAAAAGACATATCAA
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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 |
|---|---|---|---|---|---|---|
| HAL1M8 | ERF095 | 17 | 29 | + | 20.06 | ATGGCGGCGGCGG |
| HAL1M8 | ABR1 | 17 | 28 | + | 19.61 | ATGGCGGCGGCG |
| HAL1M8 | Zm00001d020267 | 19 | 28 | - | 19.43 | CGCCGCCGCC |
| HAL1M8 | Zm00001d020267 | 22 | 31 | - | 19.43 | CGCCGCCGCC |
| HAL1M8 | ERF073 | 18 | 28 | - | 19.43 | CGCCGCCGCCA |
| HAL1M8 | ERF5 | 21 | 35 | - | 19.30 | ATGCCGCCGCCGCCG |
| HAL1M8 | ERF2 | 17 | 29 | - | 19.30 | CCGCCGCCGCCAT |
| HAL1M8 | ERF073 | 21 | 31 | - | 19.30 | CGCCGCCGCCG |
| HAL1M8 | ERF115 | 19 | 29 | - | 19.29 | CCGCCGCCGCC |
| HAL1M8 | ERF115 | 22 | 32 | - | 19.29 | CCGCCGCCGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
