X9_LINE
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001122 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Amniota |
| Length | 936 |
| Kimura value | 35.38 |
| Tau index | 0.0000 |
| Description | L1 retrotransposon, X9_LINE subfamily |
| Comment | X9_LINE is found in both human and chicken at low copy number. |
| Sequence |
TAATTTTTTATGATANTAGTTCTTGGAAGATAAAGATACCNTACAATGCCTAAAAATAAACCTGGATCCGCTAAAGATTCGGCATTTTGCTCCCAAGCTTCCGCTAGCCGGGAGACGGGCCTGTCTGCTTTCGGTTTCACACCATCGGGAGGTACAGATTTGACTTATCAAACGATGTCGGATTTACTTAGTAAGAACTCGGCGGATATTAGTAAAAGGTTGGACGCGATTCAGGCTACAATGGCTGCAACGGATAAGAAGTTTGAAAGCTTTGGTTCAAGACTGCAGGAGGCTGAGAGGAAAATTGAAGACACGGAGATAACGATCGATGGACACGACGCTATTCTAACTGAGAATACCAAAGACTGTAAAGCGCTGAGAAATCGAATTGATGACCTGGAAAACAAGCTCAGATTAAGAAATGTCAGGTTGGTAGGGGTTCCTGAAGGCGCGGAGACGAGAGAAGCTGAGATATTTTTTTCGCAATGGATTATGAAGGTGCTGGGGATGGATAATTTTGAACTCCCTCTACAATGCGTCGTGGCGCGTCATATCCCTGGGAAGGCCAATCAGGCAACACCCCGCACGGTNCTTGCGGAATGTGCAGCTCTTGGAACGAGGAACAACGTTTTGAAATTGGCACGTAAATCTGAGTCCAGTTTTCAGGGTTCAAGAATCTTATTTTATCCGGATTACAGTCCTGTTCTTCTTCGGCGTCGGAAGGCGTTTGTGACTGTTAAAACGAGAATGAAAAATATGGGCCTGGAATACGCGTTGCTTTATCCTGCCAGGCTGAGGGTTCGCTGTGGAGGCCAGACATATGTCTTTCTTTCTCCCACGGATGCTACAGCGTTTCTGGATAAGAAGGAGGCAGACTGCGCCCGAACGGTGGAAGAAATGGCTTCGGAGGACTCCGGCACGAAGAGCGTATTCTTT
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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 |
|---|---|---|---|---|---|---|
| X9_LINE | EWSR1-FLI1 | 820 | 837 | - | -16.28 | GGGAGAAAGAAAGACATA |
| X9_LINE | BPC5 | 307 | 336 | + | -38.29 | GAAGACACGGAGATAACGATCGATGGACAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
