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 | hlh-1 | 912 | 921 | - | 14.17 | AACAGCTGGT |
| L3b_3end | MAFK | 563 | 572 | + | 14.16 | ATGAGTCAGC |
| L3b_3end | ARR11 | 294 | 301 | + | 14.16 | AAGATACG |
| L3b_3end | EcR | 1161 | 1168 | - | 14.10 | GAGGTCAT |
| L3b_3end | TINY | 630 | 638 | + | 14.08 | TCGCCGACA |
| L3b_3end | Mafg | 562 | 573 | + | 13.96 | TATGAGTCAGCA |
| L3b_3end | MEF2A | 1081 | 1090 | + | 13.93 | TTAAAAATAG |
| L3b_3end | GCN4 | 563 | 570 | - | 13.88 | TGACTCAT |
| L3b_3end | DREB1G | 631 | 638 | + | 13.77 | CGCCGACA |
| L3b_3end | NAC016 | 108 | 122 | - | 13.77 | TCCGTCTTGTCCACG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
