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
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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 | BPC5 | 1124 | 1153 | + | -48.22 | AGATAAAAAGGATTCGAGAGAAAGTGACAA |
| HAL1M8 | BPC5 | 1106 | 1135 | + | -48.55 | AAAAAGAAATGAAGAAAGAGATAAAAAGGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
