Charlie20a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000097 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 807 |
| Kimura value | 31.32 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie20a subfamily (non-autonomous) |
| Comment | 14 bp TIRs. |
| Sequence |
CAGTGATTCTCAAAGTATGGTCCGCGGCCCACTGGTGGGCCACGAGGGTCCTCCTGATGGGCCGCGAACTGATCCAAAAATGCAAGTCCTTTCTTTGGTTCTTACGGGCGAATGACGCGCAATTCCATAGACTTTCATTTTTACGTACGACTAAGGGCTACTTACTAGTAACCTACTAAGTGAGTTATTAAGGGTTACTAAAATTTGGTATTCATAAACTAAAATTAGCACGTTACTAGAGTTTACTGAGGACTCTAATTCAGTATTCTACTAAGAAGTCTGGCTGCCACGCAATGCTTGGCAACGTTGCAAAGCTCCTACTGCGCATGCGCACATGCAGATAGTTGGAATTCCCGCAATTTTCGGGAAGGACGCTTTGTTATCAGTGCATCATCAGTGTTGTCTTGAGTTGGTCGTGGTTTTCAATTGCTGCTATTCTTGCTTTTTAATTATAAATTACTGTTAGTTTAGCTTCATCATTATCAATTTAGTTTGTTGTGGGTTGTTTGGTTAACCCTACAGTGTGTAGTGATGCATATTTGCATCAACAGTATTTTTGGCCTATAATTTTCCAATAACTAGACTTTAAGACATGTATGCATTGCGGTTCAAATATGAATCATCCATACCCCTATTGCTAAAGCAGATGTATACATAATCCCCCCAAAATTTGCTTGTACAGTGACATTTCATTGTTATCACCGAGTTCTTTTTCCACTGGAAAGTGGGAACGGGTGGGGTAGGTGGGCCGTGGGGTCTTTTGCCCCGCCTAAGTGGGCCGCGGTCAAAAAAGTTTGAGAGCCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie20a | MYB99 | 739 | 746 | - | 13.66 | CACCTACC |
| Charlie20a | Rel | 346 | 355 | + | 13.61 | TGGAATTCCC |
| Charlie20a | ARALYDRAFT_495258 | 751 | 758 | - | 13.57 | GACCCCAC |
| Charlie20a | ARALYDRAFT_484486 | 751 | 758 | - | 13.57 | GACCCCAC |
| Charlie20a | FOXE1 | 503 | 514 | - | 13.57 | TTAACCAAACAA |
| Charlie20a | MYB51 | 738 | 748 | - | 13.49 | CCCACCTACCC |
| Charlie20a | REL | 347 | 356 | - | 13.44 | CGGGAATTCC |
| Charlie20a | MYB74 | 738 | 748 | - | 13.44 | CCCACCTACCC |
| Charlie20a | MYB13 | 738 | 747 | - | 13.43 | CCACCTACCC |
| Charlie20a | MYB111 | 739 | 746 | + | 13.43 | GGTAGGTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
