L1M4b_5end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000248 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 3237 |
| Kimura value | 22.68 |
| Tau index | 0.8323 |
| Description | 5' end of L1 retrotransposon, L1M4b_5end subfamily |
| Comment | gag ORF 1357-2340, pol ORF 3088-3237 (end) |
| Sequence |
AAGGAGTTCCACTTCCGGAATGGCGGCGTGAGGAGCTCCGCGGACCCGCTCCCCAGCGAAACAACCATAACTGGTGAAAATTATTTTAAAAAAACAACCATTTAAAGTCTCTGGAAATTGTCCTAAGGGCATACAGCAAATGAAGAAACATTTATTCAAGAAAATCTACTAAATCTCGGTAAGAACAGCGAGAGTCTGTGGCATTTGAGCCACGACCCGCTCCCTCCTCCCCCCTCCCCAGCTCAGCGTGACGGAAGCTCCACTCCGGGCGGGTGCGGCCAAGAANACGGGGCTCCCTCTCCCCCCAGCTCCCAGTCGAGGGCTACGGTATCTCCCCGGGAGGGGCAGGCCGCCAGCATTTCTCATCCCCCCCAGCTCCGTGTTGCAGAGGCTAAATTCCAGGCGAGTGCGGCCGAGAGGTCGGGGGCTCCCTTCCTCCACCCAGCCCCCACTCGTAGGGCGGAGGCTCTACCCCGGGCGCGGCAGGCCGAGAATACTGGGGCCCCGATCGCCCTCGCCCCAGCTCGCTCGTAGGGCGGAGGTTCCACGCCGGGAGAGGCAAGCCGAGAAGACCAGAGGCTACCGCCCCCGCCCAGCGCCCTGCTCNTAAAGCAGGGGTGTCACTCCGAGAGAAGCGGGCCACTGTCCCCGCCCCCAGCTCCGGAGCAGTGGCTCAGAGATTTTGCCCAGGGGGAGAGGCAGGCCATAAGAACAGAGAGCTCCGAAGCTCTCCCCAAAGGAACTGACTTTATTTGNAACAGAGTGTGGGGAAGTTCAAGCCTAAGGGCGCTCTCGAAAACAATGGAGATTTTGGTGGTAAGCAATTAAGAGGAGGCTGGTAGCTCCATGAGAGCAACAAGCTAAACCGTAGGCCAGCTAGTTTACCAGAGAGAACCAGGGAAAGAGACAGCTAAGAAGAGCCCTCCTGGGGTCAGAACAAACCTCAAAGACTGGCCTCAAAAACTACCCCTGCAAAGGGGCCCGAATTTAATTGGATCAGACTGTGGAGCAATTTATGCCCCAGGGCATTGTCGAAAACAATAGAGCAATCAGCCGGCAATTAGTGGAGCCTAACAGCTGGGTGTGATACCAACAGAGGCAGACAGCTTAACAGAGAGATCAGGGAAAGAGACAGTCAAAGAGAGCCCTGCTAAAACCACTGTCATCCCAGGGTGACTGTGCGCATGCCCAAGGCTGCGCCCTCTGAGGAGCGACATCAGAGGCTTCACACTGCGGGGGAAATAGACTTCACTAAAATAGTCCAGCCAAGTCACTAAACAAATAAACAAGCAAACAACAACAACAAGCCGGGGGAGGGGAATCAGTATCCAGAGTTGCTACAATATATTATCTAAAATGTCCAGTTTTCAACAAAAAATTATGAGACATGCAAAGAAACAGGAAAGTGTGACCCATACACAGGAAAAAAAGCAGGCAACAGAAACTGCCTGTGAGAGGGCCCAGATGTCGGATTTAGCAGACAAAGACTTCAAAGCAGCCATTATAAATATGTTCAAAGAACTAAAGGAAACCATGNTTAAAGAAGTAAAGGAAGGTATGATGACAATGTCTCATCAAATAGAGAATATCAATAAAGAGATAGAAATTATAAAAAAGAACCAAATGGAAATTCTGGAGTTGAAAAGTACAATAACTGAAATGAAAAATTCACTAGAGGGGCTCAACAGTAGATTTGAACTGGCAGAAGAAAGAATCAGCGAACTTGAAGATAGATCGATAGAGATTATGCAATCCGAAGAACAGAGAGAAAAAAGAATGAAGAAAAATGAACAGAGCCTCAGAGAAATGTGGGACACCATTAAGCGCACCAACATACGCGTAATGGGAGTACCAGAAGGAGAGGAGAGAGAGAAAGGAGCAGAAAAAATATTCGAAGAAATAATGGCTGAAAACTTCCCAAATTTGATGAAAAACATTAATCTACACATCCAAGAAGCTCAACGAACTCCAAGTAGGATAAACGCAAAGAGATCCACACCCAGACACATCATAGTAAAAATGCTGAAAGCCAAAGACAAAGAGAAAATCTTGAAAGCAGCAAGAGAAAAACGACTCATCACGTACAAGGGAACCCCAATAAGATTAACAGCTGACTTCTCATCAGAAACAATGGAGGCCAGAAGGCAGTGGGATGACATATTCAAAGTGCTGAAAGAAAAAAACTGTCAACCAAGAATCCTATATCCAGCAAAACTATCTTTCAAAAATGAAGGCGAAATAAAGACATTCCCAGATAAACAAAAACTGAGAGAATTTGTTGCTAGCAGACCCGCCTTACAAGAAATACTAAAGGAAGTTCTTCAGGCTGAAAGCAAGTGACCCCAGACGGTAATTCGAATCCACACGAAAAAACAAAGAGCACCGGTAAAGGTAATTATGTAATTATAAAAGACAGTATAAATGCATATTTCTTCTCCTTTCTTCTCTTAACTGATTTAAAAAGCAATTGTATAAAACAATATGTATATAATTGTATTGTTGGGCCTATAACATATAGAAATGTAATATATTTGACAATAACAGCACAAAGGAGGTGGGTGGGAGCAAAGCTGTATTGGAGTAAGGAAATGACACCAGATGGTAACTCGAATCCACAGGAACAAATGAAGAGAACCAGAAATGGTAAATAAGAAGGTTAATATAACAAACTCTATAAATATATACTTGCTCTCCTTTCTTCTCTCAGCTTCTTTAAAAGACATAAAATTATATAAAGTAATAATTATAACAATGTATTGTTGGGTTTGTAACATATATAGATGTAATATGTATAACAATAATAGCACAAAAAGGGGGAAAAGGGAATAGAGCTATATAGGAGTAACGTTTCTATATCTCACTGGAATTAAGTTAGTATAAATCTGAAGTNGATTCTGATAAGTTAAGATGTATATGGTAAGCCCTAGAGCAACCACTAAGAAAATAACTCAAAAAAATATAGTGAAAAAAATCATTAAAGGAATTAAAATGTTACACTAGAAAATATTCACTTAATGCAAAAGAAAGCAGTAAAGGAGGAATAGAGGAACAAAAAAGACATGAGACATATAGAAAACAAAAAGTAAAATGGCAGACGTAAATCCAACTATATCAATAATAACATTAAATGTGAATGGATTAAACAATCCAATCAAAAGGCAGAGATTGTCAGACTGGATTAAAAAACAAGATCCAACTATATGCTGTCTACAGGAGACACACTTTAGATTCAAAGAT
|
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 |
|---|---|---|---|---|---|---|
| L1M4b_5end | BPC5 | 2808 | 2837 | + | -48.78 | AAAAAGGGGGAAAAGGGAATAGAGCTATAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
