L3b_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000363 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Mammalia |
| Length | 1206 |
| Kimura value | 38.25 |
| Tau index | 0.9601 |
| Description | CR1 (Chicken Repeat 1) retrotransposon, L3b_3end subfamily |
| Comment | This represents an alternative 3' end for L3 elements. |
| Sequence |
ATTTCCTCNTAAGATAAAGCCGCTANACTAGCAGATCAGGGGAATNCCATAGACATAGTGTATCTTGATTTCAGCAAGGCATTTGACAAAGTCTCTCGTGATATCCTCGTGGACAAGACGGAGAAATGTGGGCTGGANAATGGTCAGTTAGACATTCNTAGCTGGTTGAACAACCGNACCCAAAGGACGTTGATNAATGGNTCGATGTCAACCTGGAGGGAGTCTCTAGTGGCGTGCCGCAGGGCTCTGTCCTTGGCCTTGTCCTGTCTGAATTTGTATCAATGACTTGGATGAAGATACGGAAAGCAGCTTATCAAATTTGCNAGTGGCAGAAGCTGGGAGCGACGGCTAATACGTTGGATGCAAAATCAGGATCCAAAACGATCTCGACAGACTAGAACGNCGGGCCGAANCCAACAAGATGAAATTCAACAGGGATAAACGTAAAGTCCTGCACTTGGGTTCAAAAAANCAATCGCGCGAGTACAGGATGGGGGAGACGCGGCTTAGCAGCAGCNCATGTGAAAAAGACCTGGGGGTTTTAGTTGACCGCAAGCTCAATATGAGTCAGCAGTGCGACGCGGCTGCCAAAAAAGCTAATGCGATCTTGGGCTGCATTAACAGAAGNATCGCCGACAGANCAAGGGAGGTGATNNTCCCGCTCTACTCTGCGCTGGTCAGGCCNCANCTGGAGTACTGCGTTCAGTTCTGGGCNCCACANTTTAAAAGGGACGTGGAGAANTTGGAGAGAGTTCAGAGGAGAGCAACAAAAATGATTAAAGGGCTGGAAAATGGGACCTATGAGGAAAGGTTAAAGGAACTGGGATTATTCAGCCTGGAGAAGAGAAGGCTGAGGGGNGACTTAATAACNGTCTTCAAGTATATGAAGGGTTATTACGTAGAGGACGGTGACCAGCTGTTCTCCATCTCCACTGAGGACAGAACAAGAGGAAATGGGCTTAAACTGCAGCATGAGGGATTTAGGTTAGATATAAGGAAGAACTTCCTGACAGTGAGAGTTGTTAAACACTGGAATGGGTTACCGAGGGAGGTTGCGGAATCTCCTTCTCTGGAGAGNCTTTAAAAATAGAACGGATTCTCATCTGTCTGGGATGACTTAAAGGCAGTCCTGCCTAGAGCTAGGGGNAGGGATGGACTAGATGACCTCTGAGGTCCTTTCCAATTCTGAGATTCTATGGTTTTAAA
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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 |
|---|---|---|---|---|---|---|
| L3b_3end | E2FD | 778 | 792 | + | -0.77 | TAAAGGGCTGGAAAA |
| L3b_3end | E2FE | 778 | 792 | + | -0.77 | TAAAGGGCTGGAAAA |
| L3b_3end | DAL81 | 963 | 981 | + | -39.42 | AACTGCAGCATGAGGGATT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
