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 | CCA1 | 470 | 477 | - | 14.72 | AAATATCT |
| X9_LINE | MYB51 | 427 | 437 | - | 14.66 | CCTACCAACCT |
| X9_LINE | NFYA | 566 | 573 | + | 14.54 | CCAATCAG |
| X9_LINE | WRKY59 | 159 | 168 | - | 14.53 | ATAAGTCAAA |
| X9_LINE | MEF2C | 50 | 60 | + | 14.51 | CTAAAAATAAA |
| X9_LINE | ZNF766 | 55 | 63 | + | 14.38 | AATAAACCT |
| X9_LINE | Dmbx1 | 686 | 695 | + | 14.23 | ATCCGGATTA |
| X9_LINE | YAP7 | 187 | 197 | + | 14.23 | CTTAGTAAGAA |
| X9_LINE | IRF5 | 127 | 140 | - | 14.21 | GTGAAACCGAAAGC |
| X9_LINE | PK02532.1 | 470 | 477 | - | 14.19 | AAATATCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
