L1P4e_5end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000325 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Haplorrhini |
| Length | 1391 |
| Kimura value | 17.78 |
| Tau index | 1.0000 |
| Description | 5' end of L1 retrotransposon, L1P4e_5end subfamily |
| Comment | - |
| Sequence |
GAGCCAAGATGGCCGACTAGACGCAGCCAGGAAGAGCTTCTCCCACCGAGAGAGACCAGACCATCAAGNAGACCGGCACACTCCGAGCAGATCTTCGGAAAGAAGGCATTGAGAGTGGACGGAGGGAGGACGCAGACCCCGGGCTGAAGGGGGAGGAAGCTGGGAACCCTGCACGGGGTTGCCGAGCACCAGGACTCGTTCCTGGCCCCGAGCGGCTCCTGGGGAAGGGGTGAGTNAAATAGGCGTGGAGTGGCCCACTCTCGCCACGGACCTCCGGAATCCTAGCTGCAGGAGACCCCACGACCCCCACGGACATTTGAGCTGGCAGGGAGAACTGCCCGGAGAGTTGGCAGAGACAGGACTCCAGCCTGCGCGGAGCCCAGAGGGTTTGGCGCGGGAACGGCTGCAGTGGAGCACGGCCANGGGCGCCCATCCCCCAAGGCTCGCCATACTCCTCTAGGTGGCTTTGGCCTTTGTTGGCTGCCGGACCTGGACAGAGCAGGGCTGTCTTGCCCGTGGGACTGGGGCCAGTCTGATCTGAGCGCCCCCCTGTCTGCCGGCCTCTCCCAGGGTCCCTGCCTGGCCGCACCCGCTTGCAGCGCAGCCTCAGNTGCCCAGCCGGGGCGCTTNCCAGCGGCCACCGCCATAGCTCTTTCGCCGGCAGACCCTCGCCNNCCCGTCGGAGNGCTTTTGCCGGTGCCCACGCACCCACCGCCGCCCTGCCGGCGCGCACTCGCCCGCAGCCTCCCCGCCGCCCTGCGGTGCGCATTGCCCACGGCCCCCACTGCCCCGCTGGCGCAATGCNTNCACACGGCGNCCCCCGCCGCCCCGCCGGAGCGCTTTTGCCGGCANCCCCCATCGGAGTGTTGTTGCCAGCGGACTGGGAACACNCTCGGCCCCTCCAGCGCAGCAGGTGCTTAACCTCGAGGGGCCAGAGAACAAAGCCGCGGGCCTGGTCCCAGCCCCCCAGGGTTAGAGCACGCAGCCCAGGAGTGCTGAGCTGAGCCTTGGCCCCCTGAAANCATCCAGAAACGAAGCCAGTCGACTAAACCCAACTTATACCACAGTCAAACCCTCAAGGGCATCAAAGAATATAAAAGCAAAAAGCCCCATCCAAAGGACAGCAACTTCAAAGATTAAAGGAACATCAGCCCACACAGATGAGAAAGAACCAGCGCAAGAACTCTGGCAACTCTAAAAGCCAGAGTGTCTTCTTACCTCCAAACGACCGCACTAGCTCCCCAGCAATGGTTCTTAACCAGACTGAAATGGCTGAAATGACAGACATAGAATTCAGAATCTGGATGGCAANGAAGNTCATCGAGATNCAGGAGAAGGTTGAAACCCAATCCAAGGAAANCAGTAAAACGATNCAAGAGCTGAAAGATGAC
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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 |
|---|---|---|---|---|---|---|
| L1P4e_5end | DREB2D | 632 | 645 | + | 16.05 | CAGCGGCCACCGCC |
| L1P4e_5end | ZBED4 | 823 | 832 | + | 15.96 | GCCGCCCCGC |
| L1P4e_5end | Zm00001d052229 | 710 | 719 | + | 15.81 | CACCGCCGCC |
| L1P4e_5end | ERF086 | 709 | 718 | + | 15.73 | CCACCGCCGC |
| L1P4e_5end | CTCFL | 1011 | 1018 | - | 15.72 | CAGGGGGC |
| L1P4e_5end | ZNF320 | 766 | 785 | - | 15.69 | GTGGGGGCCGTGGGCAATGC |
| L1P4e_5end | ERF013 | 638 | 646 | - | 15.61 | TGGCGGTGG |
| L1P4e_5end | ERF118 | 712 | 719 | + | 15.56 | CCGCCGCC |
| L1P4e_5end | ERF118 | 749 | 756 | + | 15.56 | CCGCCGCC |
| L1P4e_5end | ERF118 | 821 | 828 | + | 15.56 | CCGCCGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
