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 | MYB10 | 738 | 747 | - | 14.89 | CCACCTACCC |
| Charlie20a | KLF1 | 733 | 740 | + | 14.64 | GGGTGGGG |
| Charlie20a | blmp-1 | 132 | 142 | - | 14.47 | AAAAATGAAAG |
| Charlie20a | Klf15 | 725 | 746 | - | 14.43 | CACCTACCCCACCCGTTCCCAC |
| Charlie20a | WRKY1 | 779 | 788 | - | 14.30 | TTGACCGCGG |
| Charlie20a | nit-4 | 21 | 27 | + | 14.25 | TCCGCGG |
| Charlie20a | GT-1 | 508 | 515 | - | 14.16 | GTTAACCA |
| Charlie20a | VIT_17s0000g10420 | 508 | 515 | - | 14.13 | GTTAACCA |
| Charlie20a | kay | 614 | 624 | + | 14.06 | TATGAATCATC |
| Charlie20a | CG4854 | 299 | 306 | + | 14.04 | TGGCAACG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
