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 | ZSCAN16 | 375 | 392 | + | -3.68 | CTTTGTTATCAGTGCATC |
| Charlie20a | ZSCAN16 | 371 | 388 | - | -16.96 | CACTGATAACAAAGCGTC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
