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 | ZNF8 | 520 | 539 | - | 26.91 | GTGTGGATGTACCATAGTTT |
| L1MC5a_3end | ZNF558 | 68 | 96 | + | 21.29 | AATGGGCAAAAGATATGAACAGACAGTTC |
| L1MC5a_3end | PRDM9 | 774 | 793 | + | 20.36 | TAGGGGGAGGGAGGGAACAG |
| L1MC5a_3end | DOF3.4 | 2761 | 2777 | - | 19.50 | TTTTTTTTTAACTTTTT |
| L1MC5a_3end | ZNF140 | 368 | 386 | - | 17.46 | AGAAGTGGGATTGCTGGGT |
| L1MC5a_3end | THRB | 359 | 371 | - | 17.38 | GGGTCAAAGGGTA |
| L1MC5a_3end | DOF5.1 | 723 | 741 | + | 16.71 | AAAAAGAAACAATGGAAGG |
| L1MC5a_3end | odd | 1377 | 1387 | + | 16.53 | CCCAGTAGCAA |
| L1MC5a_3end | NR2F1 | 359 | 371 | - | 16.36 | GGGTCAAAGGGTA |
| L1MC5a_3end | Rfx6 | 1723 | 1731 | - | 16.32 | CCTAGCAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
