L1MC5a_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000281 |
|---|---|
| TE superfamily | L1 |
| TE order | LINE |
| Species | Eutheria |
| Length | 2777 |
| Kimura value | 27.70 |
| Tau index | 0.7843 |
| Description | 3' end of L1 retrotransposon, L1MC5a_3end subfamily |
| Comment | pol ORF ends at pos 150 |
| Sequence |
TTAATATCCCTAATATATAAAGAGCTTCTAAAAATTGAGAAGAAAAAGACCAACAACCCAATAGAAAAATGGGCAAAAGATATGAACAGACAGTTCACAGAAAAAGAAATGCAAATGGCCCTTAAACATATGAAAAGATGCTCAACCTCACTCATAATAAGAGAAATGCAAATTAAAACTACACTGAGATACCATTTCTCACCTATCAGATTGGCAAAAATCCAAAAGTTTGACAACATACTCTGTTGGCGAGGCTGTGGGGAAACAGGCACTCTCATACATTGCTGGTGGGAATGCAAAATGGTACAACCCCTATGGAGGGGAATTTGGCAATATCTAGCAAAATTACATATGCATTTACCCTTTGACCCAGCAATCCCACTTCTAGGAATCTATCCCGAAGATACACTNGCAAAAATACGAAANGACGTATGCACAAGGTTATTCATTGCAGCATTATTTGTAATAGCAAAAGACTGGAAACAACCCAAATGTCCATCAATAGGGGACTGGTTGAATAAACTATGGTACATCCACACAATGGAGTACTATGCAGCTGTAAAAAGGAATGAGGAAGATCTCTATATACTGNTATGGAGTGATCTCCAGGATATATTGTTAAGTGAAAAAAGCAAGGTGCAGAANAGTGTGTATAGTATGCTACCTTTTGTGTAAGAAAGGGGGATATAAATATATANATATACGTATTTGCTTATATTTTCAAAAAGAAACAATGGAAGGATAAACCAAAAACTAATAAAAATGGTTACCTATAGGGGGAGGGAGGGAACAGGGTGGAGGGGACAGGGATGGAAGCNAGACTTCTCTGAATGTACCTTGTTTTATAGTTTTGACTTTGGAACCATGTAAATGTTTTACATAATTANAAAACAAAATTAAATTNAAAAAAGCAATCCCTAAAAATCGAAAACAAANTGAAACAAATGAACCTAACTGTATATCAAGTTGGTGGCATAACCACACAGAGAAGAATTATTTCAAGTGACTTTAAAACACAGTANTTTGACTGTACATCCCTAGTGGGATATATTCTAAGGACAAAAAGAACCGCAAAGAAATCTTAAACTNCATTCAGTAGTCTTATTGTTAGTAGTAATATTGGTATTGTTATTTTGAAACTATTNTATGTATATTGTAGGATAAAGCAAATAAGTAATTATGTTAATGTCGTTAGGAACCAAGATTTTCAGCGTAAGAGAAAAGAGATACAAATATAAAATCAAAGAAGTTAAGTAAAAACCCTGTAATNTTAAATTTGAATTGGAAATATCAGTATGAACTCATGATNTATTTTCTCTTTAAAAAATACGTATTTCCTAGCTCTGTCCACTGAAAAGGCCTAGAAGCAATGACAACCCAGTAGCAATGAGCACCCCTAGCGCCCAGATTNTGGTCTCTAAATACCATTTCCCACTAAAAGGAACCAGGGCTCCTTGGAGAAATGGCTGATTCCAGGTCTGGGGCAGGAAATGTACAAGATGAGCCTGGGACATCTTGTCGTGCCAGAAAGCAAGGAAGCTATCAAAGACTANTGGGGTCGTGTCAAAAGGACACAGGAGCCAACTTGAAGGGGCTCCCACTGGCCAAAGATGGGACAATTTGAGCATCAAAAAGAATAATGACTGCAATGGATTGAAACACATCAAATATATNAAAATCCATGAGTTCATAATAAAAAAAACTCATTGGTCACCTTTGGAGGTTGCTAGGGCACCAACTCATTATTCTGAAAACTGGTAAATAAAGGGAAAGAATCAAGCATTTATCCTGCCTTTCCTGTACGAACTGTATTTCAGGGTAACCAAATAGTTGATGAGGGAAAGTTCTTCTTTATAGAAGAATTCCAGCTAATAAATGCAGAAGGAATGATAGAATTAGAAAATCACCATTTTGCAACCCCTAATGAAATAATGGATCTAGGCAACGATCATCAATGGNTGCTAAAACCATTAGGTGAAAGGCTGATGGGGAACTTTATAATGGANGGATCAGGCTGACANCACCTGAACCCACTGATCAATCTTAGCATCACTAAAAGTGGGACAACCAGACATTATGTGCCTCCTGATGTGATGCAATAGGAAGTACACAGCACCACCTATGAAGTATTCTTGCCAAAAAAATCGAACCTGAATCTAATCAAGCCTCTAGATCTAACTACCAGTTTACAGGAAATACGGGGGATAGAGGAACANGTTAAACGACACCACGAGGANGCAATCAGCCAAATCCAGAATGTGGGANATTCTACAGGACAAATGACCCGGTTTCTTCAACAAATAAATGGCGAGAAAAAAAAGAGGGAAGGAGAACCTATAGATTAAAAGAGACTTAAGAGACATANCAACCAAATGCAATGTGTGGACCTTGTTTGGATCCTGATTCGAACAAACCAACTGTAAAAAGACATTTTTGAGACAATCGGGGAAATTTGAACACGGACTGGGTATTAGATGATATTAAGGAATTATTGTTAATTTTGTTAGGTGTGATAATGGTATTGTGGTTATGTTNNAAAAAGTCCTTATCTTTTAGAGATACATACTGAAGTATTTACGGGTGAAATGATATGATGTCTGGGATTTGCTTTAAAATACTCCAGGAGGGAGGAAGTAGGTGGGGGTATAGATGAAACAAGANTGGCAAAATGTTGATAATTGTTGAAGCTGGGTGATGGGTACATGGGGGTTCATTATACTATTCTCTCTACTTTTGTGTATGTTTGAAANTTTCCATAATAAAAAGTTAAAAAAAAA
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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 |
|---|---|---|---|---|---|---|
| L1MC5a_3end | RARA | 792 | 809 | + | -10.23 | AGGGTGGAGGGGACAGGG |
| L1MC5a_3end | Sox21b | 2512 | 2526 | - | -10.26 | CACAATACCATTATC |
| L1MC5a_3end | EWSR1-FLI1 | 2622 | 2639 | + | -11.66 | AGGAGGGAGGAAGTAGGT |
| L1MC5a_3end | BPC5 | 1878 | 1907 | + | -47.52 | GCAGAAGGAATGATAGAATTAGAAAATCAC |
| L1MC5a_3end | BPC5 | 1870 | 1899 | + | -48.49 | TAATAAATGCAGAAGGAATGATAGAATTAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
