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 | WRKY45 | 224 | 233 | + | 16.38 | AAAAGTCAAA |
| L1PA15_3end | cad | 555 | 565 | + | 16.08 | AGCCATAAAAA |
| L1PA15_3end | DOF3.4 | 223 | 239 | - | 16.02 | TTATTTTTTGACTTTTT |
| L1PA15_3end | Klf6-7-like | 741 | 760 | - | 15.89 | CCTCCTCCCACCCTCCACCC |
| L1PA15_3end | WRKY71 | 224 | 233 | + | 15.83 | AAAAGTCAAA |
| L1PA15_3end | DOF3.6 | 888 | 908 | - | 15.80 | TTTTTTTTTAACTTTTATTTT |
| L1PA15_3end | WRKY59 | 224 | 233 | + | 15.63 | AAAAGTCAAA |
| L1PA15_3end | Bcl11B | 176 | 184 | + | 15.12 | AAACCACAA |
| L1PA15_3end | Klf15 | 740 | 761 | - | 15.03 | CCCTCCTCCCACCCTCCACCCT |
| L1PA15_3end | CDX4 | 556 | 564 | + | 15.02 | GCCATAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
