Charlie1b
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000022 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 523 |
| Kimura value | 20.57 |
| Tau index | 0.9715 |
| Description | hAT-Charlie DNA transposon, Charlie1b subfamily (non-autonomous) |
| Comment | Another internal deletion product of Charlie1. |
| Sequence |
CAGCGGTTCTCAAAGTGTGGTCCGGGGACCCCTGGGGGTCCCCGAGACCCTTTCAGGGGGTCCGCGAGGTCAAAACTATTTTCATAATAATACTAAGACGTTATTTGCCTTTTTCACTCTCATTCTCTCACGAGTGTACAGTGGAGTTTTCCAGAGGCTACATGACGTGTGATATCGCAACAGATTGAATGCAGAAGCAGATATGAGAATCCAGCTGTCTTCTATTAAGCCAGACATTAAAGAGATTTGCAAAAATGTAAAACAATGCCACTCTTCTCACTAAATTTTTTTGTTTTGGAAAATATAGTTATTTTTCATAAAAATATGTTATTTATGTTAACATGTAATGGGTTTATTATTATTTTTAAATGAATTAATAAATATTTTAAAAATTTCTCAGTTTTAATTTCTAATACGGTAAATATCGATAGATATAACCCACATAAACAAAAGCTCTTTGGGGTCCTCAATAATTTTTAAGAGTGTAAAGGGGTCCTGAGACCAAAAAGTTTGAGAACCGCTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie1b | BPC1 | 100 | 123 | - | -1.44 | ATGAGAGTGAAAAAGGCAAATAAC |
| Charlie1b | BPC6 | 101 | 121 | + | -2.75 | TTATTTGCCTTTTTCACTCTC |
| Charlie1b | Sox21b | 261 | 275 | - | -10.51 | AAGAGTGGCATTGTT |
| Charlie1b | BPC5 | 99 | 128 | - | -21.72 | AGAGAATGAGAGTGAAAAAGGCAAATAACG |
| Charlie1b | BPC5 | 101 | 130 | - | -38.94 | TGAGAGAATGAGAGTGAAAAAGGCAAATAA |
| Charlie1b | BPC5 | 97 | 126 | - | -42.49 | AGAATGAGAGTGAAAAAGGCAAATAACGTC |
| Charlie1b | BPC5 | 103 | 132 | - | -42.85 | CGTGAGAGAATGAGAGTGAAAAAGGCAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
