L1MC5_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000280 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 2694 |
| Kimura value | 25.68 |
| Tau index | 0.8765 |
| Description | 3' end of L1 retrotransposon, L1MC5_3end subfamily |
| Comment | - |
| Sequence |
TTAATATCCCTAATATATAAAGAGCTTCTAAAAATAGAGAAGAAAAAGACCAACAACCCTATAGAAAAATGGGCTAGAGATATGAACAGACAGTTCACAGAAAAAGAAATGCAAATGGCTCTTAANCATATGAAAAGATGCTCAACCTCGCTCATAATAAGAGAAATGCAAATTAAAACTACACTGAGATACCATTTCTCACCTATCAGATTGGCAAAAATCCAAAAGTTTGACAACATACTCTGTTGGCGAGGCTGTGGGGAAACAGGCACTCTCATACATTGCTGGTGGGAATGCAAAATGGTACAACCCCTATGGAGGGGAATTTGGCAATATCTAGCAAAATTACATATGCATTTACCCTTTGACCCAGCAATCCCACTTCTAGGAATCTATCCCAAAGATACACTGGCAAAAATACGAAAAGACGTATGCACAAGGCTATTCATTGCAGCACTATTTGTAATAGCAAAAGACTGGAAACAACCCAAATGTCCATCAATAGGGGACTGGTTGAATAAACTATGGTACATCCACACAATGGAGTACTATGCAGCTGTAAAAAGGAATGAGGAATATCTCTATATACTGCTATGGAGTGATCTCCAGGATATATTGTTAAGTGAAAAAAGCAAGGTGGAGAAAAGTGTGTATAGTATGCTACCGTTTATCTAAGAAAGGGGGATATAAATATATANATATACGTATTTGCTTATATTTTAAAAAAAAAACAATGGAAGGATAAACCAAAAATTAATAAAAATGGTTACCTATAGGGGGAGGGAGGGAATAGGGTGGAGGGGACAGGGATAGAAGCTAGACTTCTTTGAATATACCTTGTTTTGTAGATTTGACTTTGGAACCATGTAAATATTTTACATAATTATAAAACAAAATTAAATTTNAAAAAGCAATCCCTAAAAATCGAAAGCAAAATGAAACAAATGAACCTAACTGTGTATCNAGTTGGTGGCATAACCACACAGAGAGGAACTATTCCAAGTGACTTTAAAACACAGTAATTTGACTGTACATCCCTAGTGGGATATACCCTAAGGACAAAAAGAACTGCAAAAAAATCTTAAACTGTTTTCAGTAATCATATTGTTGGTGGTAGTGTTGGTATTGTTATTCTGAGACTGTTGTGTGTGTATTGTGGGATAAAGCAAATGAGTAATTATGTTGGTGTCGTTGAGAACCGGGATTTTCGGCGTGGGAGAAAGGAGATACAGATGTAAGATCGATGAGGTTAAGTAAAAACCCTGTAGTCCTGAATTTGAATTGGAAGTATCAGTATGAACTCATGATGTATTTTATCTTTAAAAAATACATATTTCCTAGCTCTGTCCACTGAAAAGGCCTAGAAACAATGACCAACCCAGTAGCAATGAGCACCCCTAGCGCCCAGATTGTGGTCTCTAAATACCATTTCCCACTAAAAGGAACCAGGGCTCCTTGGAGAAATGGCTGATTCCAGGTCTGGGGCAGGAAATGTACAAGATGAGCCTGGAACATCTTGTCATACCAGAAAGCAAGGAAGCTATCAAAGACTACTAGGGTCGTGTCAAAAGGACTCAGGAGCCAACTTGAAGAGGCTCCCACTGGCCAAAGATGGGACAATTTGAGCATCAATAAGGATAATAACTGCAATGGATTGAAACACATCAAATATGTTTAAATCCATGAGTTCATAATGATACTTAAAAAAAACTCATTGGTCACCTTTGGAGGATGCTAGGGAACCAACTCATTATTTTGAAAACTGGTAAATAAAGGGAAAGAATCAAGCATTTATCCTGCCTTTCCTATACGAACTGTACCTCAGGGTAACCAAATAGTTGATGAGGGGAAGTTTCTCTTTATAGAAGTATTCCAGCTAATAAATGAAGAAGGAATGATAGAATTAGAATATCACCATTTTGCAACCCCTAATGAANTAATGGATCTAGGCAATGATCATCAATGGCTGCTAACATCACAAAAAGAGAGACAACCAGACATTATGTGCCTCCTGATGGAAGNACACAACACCACCTATGAAGTAGTCTTGCCAAAAAAATCGAACCTGAATCTGATCAAGCCTCTAGATCTAACTACCAATTTACAGGAAATACAGGGGACAGAGGAACATGTTAAACGACACCACGGGGATGCAATCAGCAAAATCCAGACTGTGGGAAACTCTACAGGACAAACGACCCGGTTTCTTCAACAAATAAATTGCAAGAAAAAAAAGATGGAGGGGGAACCTATAGATTAAAAGAGACTTAAGAGACATATCAACCAATCGCAATGTATGGACCTTATTTGGATCCTGATTCAAACAAACAAACTATAAAAAAACATTTATGAGACAATCGGGGAAATTTGAACACTGACTGGATATTTGATGATATTAAGGAATTATTGTTAATTTTTTAGGTGTGATAATGGTATTGTGGTTATGTTTTTNAAAAGAGTCCTTATCTTTTAGAGATACATACTGAAATATTTACGGATGAAATGATATGATGTCTGGGATTTGCTTCAAAATAATCCGGGAGGGAGGAAGTGGGTGGGGGTATAGATGAAACAAGATTGGCCATGAGTTGATAATTGTTGAAGCTGGGTGATGGGTACATGGGGGTTCATTATACTATTCTCTCTACTTTTGTATATGTTTGAAATTTTCCATAATAAAAAGTTAAAAAAAAA
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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 |
|---|---|---|---|---|---|---|
| L1MC5_3end | SPL8A | 544 | 552 | - | 15.77 | ATAGTACTC |
| L1MC5_3end | ZNF281 | 776 | 785 | + | 15.49 | GGGGGAGGGA |
| L1MC5_3end | KLF4 | 2553 | 2560 | - | 15.48 | CCCCACCC |
| L1MC5_3end | TBX15 | 2420 | 2427 | + | 15.44 | AGGTGTGA |
| L1MC5_3end | DOF1.5 | 2673 | 2688 | + | 15.39 | ATAATAAAAAGTTAAA |
| L1MC5_3end | Sox7 | 728 | 737 | + | 15.33 | AAAACAATGG |
| L1MC5_3end | TBX20 | 2419 | 2429 | + | 15.26 | TAGGTGTGATA |
| L1MC5_3end | TBX1 | 2420 | 2427 | + | 15.16 | AGGTGTGA |
| L1MC5_3end | KLF9 | 2551 | 2561 | - | 15.08 | CCCCCACCCAC |
| L1MC5_3end | ZNF558 | 68 | 96 | + | 15.06 | AATGGGCTAGAGATATGAACAGACAGTTC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
