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 | unc-86 | 532 | 539 | - | 14.03 | ATATGCAT |
| Charlie20a | DOF3.4 | 431 | 447 | + | 13.97 | TGCTATTCTTGCTTTTT |
| Charlie20a | REV | 472 | 485 | + | 13.93 | CTTCATCATTATCA |
| Charlie20a | pqm-1 | 380 | 387 | - | 13.89 | ACTGATAA |
| Charlie20a | ATMYB31 | 491 | 505 | - | 13.87 | CAACCCACAACAAAC |
| Charlie20a | MYB40 | 739 | 748 | - | 13.87 | CCCACCTACC |
| Charlie20a | MYB31 | 491 | 505 | - | 13.87 | CAACCCACAACAAAC |
| Charlie20a | nhr-6 | 683 | 690 | - | 13.81 | AAATGTCA |
| Charlie20a | kay | 614 | 624 | - | 13.81 | GATGATTCATA |
| Charlie20a | FUS3 | 333 | 339 | + | 13.75 | ACATGCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
