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 | AT4G12670 | 241 | 269 | - | -14.43 | CACATATTTATACCCTAAACCTACTACCT |
| Charlie1 | BCL6B | 222 | 238 | + | -15.44 | TGTTTTCTAGAATTTTC |
| Charlie1 | EWSR1-FLI1 | 717 | 734 | + | -16.16 | TCATGGAAGGGAGGAATC |
| Charlie1 | AT4G12670 | 234 | 262 | - | -16.31 | TTATACCCTAAACCTACTACCTTAGAAAA |
| Charlie1 | AT4G12670 | 892 | 920 | - | -17.24 | TTAAACTCTGAATGATTGGTCTCAAAATG |
| Charlie1 | BPC5 | 99 | 128 | - | -21.72 | AGAGAATGAGAGTGAAAAAGGCAAATAACG |
| Charlie1 | BPC5 | 101 | 130 | - | -38.94 | TGAGAGAATGAGAGTGAAAAAGGCAAATAA |
| Charlie1 | DAL81 | 790 | 808 | - | -39.42 | TAAAGCCGAGGGAAAGATA |
| Charlie1 | BPC5 | 97 | 126 | - | -42.49 | AGAATGAGAGTGAAAAAGGCAAATAACGTC |
| Charlie1 | BPC5 | 103 | 132 | - | -42.85 | CGTGAGAGAATGAGAGTGAAAAAGGCAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
