L1MC5a_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000281 |
|---|---|
| TE superfamily | L1 |
| TE class | 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 | TCX3 | 1273 | 1284 | - | 15.38 | CAATTCAAATTT |
| L1MC5a_3end | TBX20 | 2505 | 2515 | + | 15.26 | TAGGTGTGATA |
| L1MC5a_3end | TBX1 | 2506 | 2513 | + | 15.16 | AGGTGTGA |
| L1MC5a_3end | pan | 1059 | 1072 | - | 15.10 | GCGGTTCTTTTTGT |
| L1MC5a_3end | tll | 850 | 859 | - | 15.04 | CAAAGTCAAA |
| L1MC5a_3end | WRKY1 | 365 | 374 | + | 15.04 | TTGACCCAGC |
| L1MC5a_3end | Nr2f6 | 359 | 371 | - | 14.99 | GGGTCAAAGGGTA |
| L1MC5a_3end | MYB39 | 2631 | 2642 | - | 14.98 | CCCACCTACTTC |
| L1MC5a_3end | STAT1 | 383 | 391 | + | 14.93 | TTCTAGGAA |
| L1MC5a_3end | Pparg::Rxra | 359 | 371 | - | 14.86 | GGGTCAAAGGGTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
