Charlie1
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000018 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Metatheria,Eutheria |
| Length | 2781 |
| Kimura value | 20.20 |
| Tau index | 0.9634 |
| Description | hAT-Charlie DNA transposon, Charlie1 subfamily (autonomous) |
| Comment | 15-16 bp terminal inverted repeats. 8 bp TSD. |
| Sequence |
CAGCGGTTCTCAAAGTGTGGTCCGGGGACCCCTGGGGGTCCCCGAGACCCTTTCAGGGGGTCCGCGAGGTCAAAACTATTTTCATAATAATACTAAGACGTTATTTGCCTTTTTCACTCTCATTCTCTCACGAGTGTACAGTGGAGTTTTCCAGAGGCTACATGACGTGTGATGACGTCATCGCTCTGACGGCTAATGGAATGTGTGCTTGTGTATTCTTGTGTTTTCTAGAATTTTCTAAGGTAGTAGGTTTAGGGTATAAATATGTGCGTTTTCAGAGATTAACTCAGTTTGTTCTCAGTACTTCTACTGTGCTCTTACTAGCTATCTTCGGTTATACCTGCTATAATCTCTGTAACCTCATTATCGTCCAATAAATCGTTATTTTGAAATCCCGAAGTTTTCCTTGTGCCTACGCGGAAACACAACAAGAAGTAAGTACACTTTGTTGTCTTGTTTTGCAATAATATTTTNAAATTTTTTGAAAACTTTTCTAAATTTTAAAATTTTATCTAAAACTATTATTTTAGAATTTAATAATATTTATTCTAAAATAAAAGAAAATTTATTTATAATATATTTTTCTTATATTTAAGGATGGATCGTTGGCTTNAAAAAGGGAGATTAGAAGACTTGCTTTCTCAACCCACAGCTGCACCGTCTACGTCTAAAGATGCTGAAAAAGATGAAACTGACATATCAGAGAGTTCTCTGACTCATGGAAGGGAGGAATCTACTCCAAAGAAACTGGGCGAAACTGTAAATAAGAAACGAAAATATGATGAAAGCTATCTTTCCCTCGGCTTTATAGATGTTAATAATTTACCTTATTGTGTCTTATGCAACAGAACATTTTCGAATAGTATTATGGTGCCAGTTAAGTTGCGGCATCATTTTGAGACCAATCATTCAGAGTTTAAAGAAAAAGGAATTGAATATTTTAAACGTAGACGTGATGAGCTCTTTAAAAGCCAAAAATTGTTTGTTACAGCTTTTCAAACTAGAAATGAAAAAGCCACTGAAGCATCTTACAGGGTAAGTTATCGTATTGCATTGGCTGGAGAAGCGCACACAATAGCTGAGAGACTAATAAAGCCTTGTACAGTTGACATTGCTGAATGCCTGCTGGATGAAAAGTCAGTAAAAGAAATCACGGCACTGCCACTTTCCAATGATACAGTAACTCGTCGAATTAAAGATTTAGCTGCAAACATGAAGACTGAGTTAATATCTCGTCTGCAGAATTGTACTTTTGCCTTACAAATGGACGAATCTACAGACGTGGCTGGACTTGCTGTTTTGCTTGTATTCGTCCGGTATCAGCACCAACTAATCATCGAAGAAGATCTTTTATGTGAATGCTTGGCAACAAACACAAGTGGTGCTGAAATATTCAAAGTGTTGAATAACTTTTTTGAATCTCATGGTTTATCCTGGAACAACTGTGTTGACATTTGCACTGATGGTGCAAAAGCAATGGTGGGTAAAACTGCTGGCGCCTTAGCACGAATCAAGGCAGTGGCACCAAACTGTACTAGTAGTCATTGTATTCTTCACCGCCACGCACTCGCAGTNAAAAAAAAGCCAGTTTCACTTAAGAATGTCCTTGATGAAGCAGTAAAAATTATTAATTTTATTAAATCTCGACCCTTGAGTACACGTCTTTTTAATATTCTGTGTGACGAAATGGGAAGTACGCATAAAGCACTTCTGCTGCATACCGAAGTACGATGGTTGTCTCGAGGAAAAGCACTTGTGCGATTGTTTGAGTTGCGAGCTGAACTAGCCGCTTTTTTCATGGAACACCATTTTTACTTGAAAGAACGACTGACAGACAAACTATGGTTATTCAGACTTGGGTATTTGGCAGACATTTTCTCGAAAATGAACGAAGTGAGCCTGTCACTTCAAGGAAAACAACTGACAGTATTTGTTGCCAATGATAAAATTCGAGCTTTCAAGCGAAAATTAGAATTTTGGAAAACTTGTATCCGCCACCGTGAGCTTGACAGCTTCCCAATACTTAAAGACTTTTCTGATGAGATCGGTGGTGATATTAACGAATGTGATTTTTTGATATTGTATAATGAAATGTGTCAACATTTGGAAGATCTGCATAACTCAGTGAACCAATATTTTCCAAATGACCAATGCATGATGTTACAAAATCATGCATGGGTAAAAGATCCATTCAAAGTGCAAGATAGACCAATGGATTTTAATGTAACAGAGTACGAAAAGTTCATTGATATGGTTTCAGATTCCACATTGCAACTAACCTTTAAGAAACTACCACTTGTCGAGTTTTGGTGTAGTATCAAAGAAGAATATCCACAATTATCTGAAAAGGCTATTAAAATACTCCTCCCTTTTCCAACTACATATCTGTGTGAGGCCGGATTTTCTTCATATACTTCAACCAAAACAACATATCGCAACAGATTGAATGCAGAAGCAGATATGAGAATCCAGCTGTCTTCTATTAAGCCAGACATTAAAGAGATTTGCAAAAATGTAAAACAATGCCACTCTTCTCACTAAATTTTTTTGTTTTGGAAAATATAGTTATTTTTCATAAAAATATGTTATTTATGTTAACATGTAATGGGTTTATTATTATTTTTAAATGAATTAATAAATATTTTAAAAATTTCTCAGTTTTAATTTCTAATACGGTAAATATCGATAGATATAACCCACATAAACAAAAGCTCTTTGGGGTCCTCAATAATTTTTAAGAGTGTAAAGGGGTCCTGAGACCAAAAAGTTTGAGAACCGCTG
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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 |
|---|---|---|---|---|---|---|
| Charlie1 | FOS | 171 | 183 | + | 22.45 | GATGACGTCATCG |
| Charlie1 | FOS | 170 | 182 | - | 22.24 | GATGACGTCATCA |
| Charlie1 | JUNB | 171 | 181 | - | 20.14 | ATGACGTCATC |
| Charlie1 | JUNB | 172 | 182 | + | 20.14 | ATGACGTCATC |
| Charlie1 | HSFA1E | 226 | 239 | - | 19.69 | AGAAAATTCTAGAA |
| Charlie1 | Znf423 | 26 | 40 | + | 19.38 | GGACCCCTGGGGGTC |
| Charlie1 | HSF1 | 226 | 238 | + | 19.21 | TTCTAGAATTTTC |
| Charlie1 | HSF2 | 226 | 238 | + | 19.11 | TTCTAGAATTTTC |
| Charlie1 | TGA3 | 171 | 181 | - | 19.08 | ATGACGTCATC |
| Charlie1 | TGA3 | 172 | 182 | + | 19.08 | ATGACGTCATC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
