L1MB8_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000274 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 925 |
| Kimura value | 19.49 |
| Tau index | 0.8421 |
| Description | 3' end of L1 retrotransposon, L1MB8_3end subfamily |
| Comment | ORF2 ends at bp ~675 |
| Sequence |
CTTGTATCCAGAATATATAAAGAACTCTTACAACTCAATAATAAAAAGACAAATAACCCAATTNAAAAATGGGCAAAGGATCTGAATAGACATTTCTCCAAAGAAGATATACAAATGGCCAATAAGCACATGAAAAGATGCTCAACATCATTAGTCATCAGGGAAATGCAAATCAAAACCACAATGAGATACCACTTCACACCCACTAGGATGGCTATAATCAAAAAGACAGATAATAACAAGTGTTGGCGAGGATGTGGAGAAATTGGAACCCTCATACACTGCTGGTGGGAATGTAAAATGGTGCAGCCGCTTTGGAAAACAGTCTGGCAGTTCCTCAAAAGGTTAAACATAGAGTTACCATATGACCCAGCAATTCCACTCCTAGGTATATACCCAAGAGAAATGAAAACATATGTCCACACAAAAACTTGTACACGAATGTTCATAGCAGCATTATTCATAATAGCCAAAAAGTGGAAACAACCCAAATGTCCATCAACTGATGAATGGATAAATAAAATGTGGTATATCCATACAATGGAATATTATTCGGCAATAAAAAGGAATGAAGTACTGATACATGCTACAACATGGATGAACCTTGAAAACATTATGCTAAGTGAAAGAAGCCAGTCACAAAAGACCACATATTGTATGATTCCATTTATATGAAATGTCCAGAATAGGCAAATCTATAGAGACAGAAAGTAGATTAGTGGTTGCCTAGGGCTGGGGGGAAGGGGGAATGGGGAGTGACTGCTAATGGGTACGGGGTTTCTTTTNGGGGTGATGAAAATGTTCTAAAATGATTGTGGTGATGGTTGCACAACTCTGTGAATATACTAAAAACCATTGAATTGTACACTTTAAATGGGTGAATTGTATGGTATGTGAATTATATCTCAATAAAGCTGTTAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1MB8_3end | SOX21 | 851 | 865 | + | 0.67 | AACCATTGAATTGTA |
| L1MB8_3end | SOX21 | 851 | 865 | - | 0.10 | TACAATTCAATGGTT |
| L1MB8_3end | ZNF410 | 880 | 895 | - | -0.44 | ACATACCATACAATTC |
| L1MB8_3end | Rarb | 332 | 348 | + | -2.94 | AGTTCCTCAAAAGGTTA |
| L1MB8_3end | THI2 | 690 | 704 | + | -3.25 | GCAAATCTATAGAGA |
| L1MB8_3end | EWSR1-FLI1 | 735 | 752 | + | -13.11 | GGGGGGAAGGGGGAATGG |
| L1MB8_3end | AT4G12670 | 849 | 877 | + | -16.67 | AAAACCATTGAATTGTACACTTTAAATGG |
| L1MB8_3end | BPC5 | 698 | 727 | + | -46.85 | ATAGAGACAGAAAGTAGATTAGTGGTTGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
