Charlie24
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000101 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Theria_mammals |
| Length | 2449 |
| Kimura value | 31.14 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie24 subfamily |
| Comment | 14-16bp TIRs. ORF (roughly 354-2162) encodes a transposase closest to Charlie11 transposase (>50% identical, >67% similar). |
| Sequence |
AGATGTTTTTAAACTGNAGTCCATAGACAGGNCTTTAGGGGGTCCGTGAACCGGACACAAAAATATTTTTTTCTTTNATTTCTTTCCTGTTACTTTGAAAATTGTCTTTGTGAAAAAATTATTTTTATGTCAAATTATGTTATTAAGGTATTGTTTCACTCCAAACAAGTGTAGGGTGGCATGGGATGCTACTGTACATGGTCAGGTAATGTACAATTATCATCGTTACCATGTTATGACGTCTAGAATAGTTTCCCATTGATAGGAATTAAAGAAAACGTACCCTGCCATTATGATTATGGACATCTGTCTTTGTTTACATCGGGCCTAGCTTAAGTTGGAAAATGTCAAAGAAAAGAAAGTATAATGAAGCTTACGTATCCTTTGGTTTTACTTTCATCGCCGAACGTGATGGGACACAAAAGCCACGGTGCTTCTTGTGTGGCAAGGTTCTTGCCAATGGAAGCACGAAGCCAACAAAGCTGAAGGAGCACCTTATATCTGTCCATCCTGAAAATACATCAGACAGTGTGGATCTTTTTCGTGAGAAGAAGGCTCGATTTGAAAAGGCTGGAACTTTACCAAAACTTGGATTTGCCCCAACACAAAAGCCTTGTCTTGAAGCATCCTACAAGGTTGCTTATCGCATTGCCAAGCAAAAGAAGCCACACACAATTGGAGAGACCTTGGTGAAGCCATGTGCCCTGGAAATGGTCGAGCTGGTTTGTGGCTTGGAGCAGAGGAAGAAAATTGAAGCAGTGCCTCTGTCAAATGACGTCATCCACTCCAGAATCGCTGACATTTCTTCTAATATTTTGAAGCAGGTCATGGAGGAATTGGCAGCTATGCCATTTCCCTTCAGCATGCAACTGGATGAAACTACTGACGTCTCTCAGTGCAGCCAGCTCCTGGTTTTCGTCCGTTATGTGCACGCTGACGCCATCAAAGAAGAATTCCTATTTTGTGAGCCCCTTTTGGAAACTNCAAAGGCCGTCGACATCTTCGAAATGGTGAAAAGTTTCTTTGCCAAGCAAAACTTCGACTGGAAGAAAAATCTTGGTACTCTGTGCACAGATGGAGCACCTGCGATGCTTGGCAACACATCTGGTTTTGCTGCTTTGGTGAAGAAAGAAGCTCCACACGTCATCGTGACTCGTTGCTTTCTACATCGGCATGCATTGGCGTCAAAGACTCTGCCAACAATCCTGAAAGAAGTCTTGTCTACTGCCGTGAAAGTCGTCAACTTCATCAGAGCCAGGGCCTTGAATCACCGCCTTTTCAAGAGGTTTTGTCAAGAAATGGGAGCAGAATATGAAGTTCTTCTCTACTACACAGAAGTTCGCTGGCTTTCCAGAGGACAAGTCTTGAAGCGCTTGATTGAACTTCGGGCAGAAGTTTCACTTTTTTTGAGAGAAAAGGAAAGCCCACTCTCAGAACAATTTGACAGGGAGGAGTTCATTCATGGCTTGGCTTACTTGGCGGATATTTTTGGCCATATGAATGAGGTAAATCTTTCGATTCAAGGCCCTGCAGTCACCATTATGGATGCTGCTGAAAAACTACGAGCTCTTTTGGCCAAGCTGCCACTCTGGAAGAGGAGATTGGAGGCAGACAACTATGCGAACTTTCCAATGCTGGAGGAAGTGCTTCTGCAGGCTGGAGTCGAGAGTGACAAAGCCTTGTCAATTTCTCTGCAGGCAGAAATCTGCAGACACCTGGAAACACTGCAGAACTCTTTTGAAGGTTACTTCTGCTCAGACGACCTTAAAATTGAAACGTGGATTCGTAATCCTTTCCTTGCTGACATAGACAGCATCAATGATGCAGACCTTGCCAAAGATGACCTCATTGACTTGAGGACAAAGGAAATGATGCGACATGAATTCAACTCGAAGAGTCTTGGAGAATTCTGGTGTTCCTTGACACAAGCCTACCCTCATCTGGCAAAGCGAGCTATGGGAGCTCTGATTCCGTTTGCTACTACATACCTTTGTGAGTCAGGGTTTTCAGCACTTGTTGCCATCAAAACGAAAAGTCAAAATCGATTGGATGTCAAAGATGACATGCACGTTGCCATGTCAAAGACCACTCCACAATTTCAANCTTCATTCAAGCCAAACAACAGCAGCCTTCTCATTGAAATTTACTTTTGAGCAGAATTAAAGTTTACTTTTGTTTTATTTGCACAATTTGGATTTATTTCNATTTTTTTCAGGAAGTGGCCATTAATTTTTGCATGAAAAATGAGAGTGAGAGACATAATTCTTTGTAAAGATTGTTTTTATATTCTGTCTATGTGAAGGAAATNAATTTCCAATGCAATAAAATAAATTGTATGCAAAATATTTGTGTGTATGTGTNTATGTGCATTTTTTTCTGGGGAGAGAGTCCATAGCTTTCATCAGATTCTCAAAGGGGTCCGTGACCCAAAAAAGGTTAAGAACCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie24 | JUNB | 772 | 782 | + | 20.14 | ATGACGTCATC |
| Charlie24 | TGA3 | 772 | 782 | + | 19.08 | ATGACGTCATC |
| Charlie24 | TGA9 | 772 | 782 | - | 19.08 | GATGACGTCAT |
| Charlie24 | Atf-2 | 772 | 782 | - | 18.80 | GATGACGTCAT |
| Charlie24 | Fos-b | 772 | 781 | + | 18.67 | ATGACGTCAT |
| Charlie24 | Fos-b | 772 | 781 | - | 18.67 | ATGACGTCAT |
| Charlie24 | ATF7 | 772 | 781 | + | 18.64 | ATGACGTCAT |
| Charlie24 | ATF7 | 772 | 781 | - | 18.64 | ATGACGTCAT |
| Charlie24 | FOSB::JUN | 772 | 782 | - | 18.37 | GATGACGTCAT |
| Charlie24 | JDP2 | 772 | 781 | + | 18.34 | ATGACGTCAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
