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 | ERF2 | 20 | 32 | - | 21.38 | CCGCCGCCGCCGC |
| HAL1M8 | Zm00001d049364 | 19 | 29 | - | 21.01 | CCGCCGCCGCC |
| HAL1M8 | Zm00001d049364 | 22 | 32 | - | 21.01 | CCGCCGCCGCC |
| HAL1M8 | ERF9 | 10 | 28 | + | 20.79 | TGGGAAGATGGCGGCGGCG |
| HAL1M8 | ERF104 | 20 | 35 | - | 20.76 | ATGCCGCCGCCGCCGC |
| HAL1M8 | DREB2D | 19 | 32 | - | 20.74 | CCGCCGCCGCCGCC |
| HAL1M8 | ERF014 | 18 | 32 | - | 20.39 | CCGCCGCCGCCGCCA |
| HAL1M8 | ERF091 | 17 | 29 | + | 20.33 | ATGGCGGCGGCGG |
| HAL1M8 | DREB2G | 19 | 32 | + | 20.23 | GGCGGCGGCGGCGG |
| HAL1M8 | ZNF281 | 567 | 576 | + | 20.07 | GGGGGAGGGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
