HAL1M8
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000156 |
|---|---|
| TE superfamily | L1 |
| TE class | 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
|
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 | Zm00001d020595 | 19 | 28 | + | 19.23 | GGCGGCGGCG |
| HAL1M8 | Zm00001d020595 | 22 | 31 | + | 19.23 | GGCGGCGGCG |
| HAL1M8 | ERF8 | 18 | 28 | + | 19.20 | TGGCGGCGGCG |
| HAL1M8 | ZNF148 | 567 | 576 | - | 18.97 | CCCCTCCCCC |
| HAL1M8 | DREB2F | 19 | 29 | - | 18.82 | CCGCCGCCGCC |
| HAL1M8 | DREB2F | 22 | 32 | - | 18.82 | CCGCCGCCGCC |
| HAL1M8 | Zm00001d002364 | 19 | 28 | - | 18.73 | CGCCGCCGCC |
| HAL1M8 | Zm00001d002364 | 22 | 31 | - | 18.73 | CGCCGCCGCC |
| HAL1M8 | ERF105 | 20 | 29 | + | 18.67 | GCGGCGGCGG |
| HAL1M8 | ERF105 | 23 | 32 | + | 18.67 | GCGGCGGCGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
