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 | WRKY8 | 224 | 234 | + | 14.14 | AAAAGTCAAAA |
| L1PA15_3end | HOXD9 | 556 | 564 | + | 14.08 | GCCATAAAA |
| L1PA15_3end | DOF3.6 | 890 | 910 | - | 14.03 | TTTTTTTTTTTAACTTTTATT |
| L1PA15_3end | DOF3.6 | 220 | 240 | - | 13.94 | GTTATTTTTTGACTTTTTAAT |
| L1PA15_3end | WRKY29 | 225 | 233 | + | 13.91 | AAAGTCAAA |
| L1PA15_3end | ZFP14 | 259 | 273 | + | 13.89 | GGAGAAAAGGGAACG |
| L1PA15_3end | tbx-38 | 659 | 670 | - | 13.84 | TAAGTGAGAACA |
| L1PA15_3end | ZNF263 | 752 | 758 | + | 13.83 | GGGAGGA |
| L1PA15_3end | Cf2 | 529 | 537 | - | 13.76 | GTATATGTA |
| L1PA15_3end | FUS3 | 430 | 436 | + | 13.75 | ACATGCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
