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 | Nrf1 | 321 | 332 | + | 20.67 | CTGCGCATGCGC |
| Charlie20a | Nrf1 | 323 | 334 | - | 19.56 | GTGCGCATGCGC |
| Charlie20a | ewg | 323 | 332 | + | 18.54 | GCGCATGCGC |
| Charlie20a | ewg | 323 | 332 | - | 18.54 | GCGCATGCGC |
| Charlie20a | MYB63 | 737 | 747 | - | 16.57 | CCACCTACCCC |
| Charlie20a | KLF4 | 733 | 740 | - | 15.48 | CCCCACCC |
| Charlie20a | Klf15 | 734 | 755 | - | 15.39 | CCCACGGCCCACCTACCCCACC |
| Charlie20a | MYB17 | 738 | 748 | - | 15.13 | CCCACCTACCC |
| Charlie20a | ZBTB32 | 676 | 685 | + | 15.09 | TGTACAGTGA |
| Charlie20a | ATHB-15 | 474 | 486 | - | 15.06 | TTGATAATGATGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
