L1PA15_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000335 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Haplorrhini |
| Length | 912 |
| Kimura value | 12.09 |
| Tau index | 0.9478 |
| Description | 3' end of L1 retrotransposon, L1PA15_3end subfamily |
| Comment | ORF2 ends at bp ~684 |
| Sequence |
CTAATATCCAGAATCTATAAGGAACTTAAACAAATTAACAAGCAAAAAACAAACAACCCCATTAAAAAGTGGGCAAAGGACATGAACAGACACTTTTCAAAAGAAGACATACACGCGGCCAACAAGCATATGAAAAAATGCTCAACATCACTAATCATTAGAGAAATGCAAATCAAAACCACAATGAGATACCATCTCACACCAGTCAGAATGGCTATTATTAAAAAGTCAAAAAATAACAGATGCTGGCGAGGTTGCGGAGAAAAGGGAACGCTTATACACTGCTGGTGGGAATGTAAATTAGTTCAGCCACTGTGGAAAGCAGTTTGGCGATTTCTCAAAGAACTTAAAACAGAACTACCATTCGACCCAGCAATCCCATTATTGGGTATATACCCAAAGGAATATAAATCGTTCTACCATAAAGACACATGCACGCGTATGTTCATCGCAGCACTATTCACAATAGCAAAGACATGGAATCAACCTAAATGCCCATCAACGGTAGACTGGATAAAGAAAATGTGGTACATATACACCATGGAATACTACGCAGCCATAAAAAAGAACGAGATCATGTCCTTTGCAGCAACATGGATGGAGCTGGAGGCCATTATCCTAAGCGAACTAACGCAGGAACAGAAAACCAAATACCGCATGTTCTCACTTATAAGTGGGAGCTAAACATTGAGTACACATGGACACAAAGAAGGGAACAACAGACACCGGGGCCTACTTGAGGGTGGAGGGTGGGAGGAGGGTGAGGATCGAAAAACTACCTATCGGGTACTATGCTTATTACCTGGGTGACGAAATAATCTGTACACCAAACCCCCGTGACACGCAATTTACCTATATAACAAACCTGCACATGTACCCCTGAACCTAAAATAAAAGTTAAAAAAAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1PA15_3end | NR1H2::RXRA | 68 | 84 | + | -4.28 | AGTGGGCAAAGGACATG |
| L1PA15_3end | Sox21b | 372 | 386 | + | -9.08 | AGCAATCCCATTATT |
| L1PA15_3end | RARA | 870 | 887 | - | -9.52 | AGGTTCAGGGGTACATGT |
| L1PA15_3end | EWSR1-FLI1 | 744 | 761 | + | -10.82 | TGGAGGGTGGGAGGAGGG |
| L1PA15_3end | EWSR1-FLI1 | 748 | 765 | + | -15.43 | GGGTGGGAGGAGGGTGAG |
| L1PA15_3end | DAL81 | 238 | 256 | + | -39.42 | AACAGATGCTGGCGAGGTT |
| L1PA15_3end | BPC5 | 64 | 93 | + | -45.85 | AAAAAGTGGGCAAAGGACATGAACAGACAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
