Charlie11
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000084 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 2196 |
| Kimura value | 30.02 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie11 subfamily |
| Comment | Incomplete termini. Very short TIRs; ends tough but TSD bias clear. |
| Sequence |
CAGTGGCGAGTTGCTTGCATTNAGTTGTCCTGTCACGGCTTAATTTGTACCGCCATATTGCCGGGCGTTTCTTGATGCATGTACAGATGATGATATGGCAGCGCCGTGGCTTTGTTTNAANTCAGTTAGCCGCTGATTGTTANCGCGTTGNTTATAGTTTACTCCCACAGCAAAACTCCGCGACATCTCTGGGTAGTACCTGNATATTTTNGTGTGCCATGTTGAAGAAACGCAAATGGAACGACGACTATGCTCGTTACGGATTCGCTTGTACGACGGAGATGGATGGAACTCAGCGACCACAATGCGTNCTGTGCAACTCGTTATTTTCAAACGCCAATCTCANACCATCGAAGCTNTCCGANCATTTCAACAAACAGCACGGCGGTGCAGCCGGACATGACCTTGACANCCTGAAGTCTAGCGAGAGCACATTTGATCATAGCAGAACCTTGAGGACATTTGGGTTTGTGTCACTTGAGAAGCCCTTGTTACAAGCATCCTATCAAGTTGCATATTTGTGTGCCAAGGAAAAGAAGCCTCATNCAATAGCTGAAAAATTAGTGAAACCTCGTGCATTGGAAATGGCAAAAATAATATTGGGACCAGATGCACAAAAGAAGCTTCAGCAGGTTCCCTTGTCAAATGACGTGATCCGTTCTAGAATTCATGAGATGAGCCAGGATATCTTGCAGCAAGTTATAGAAGATATCAAAGCTAGTCCTCTTAAAGTGGGTATTCAGCTTGATGAGTCAACTGACATTGATGGCTGCAGTCAGCTNTCGGTGTTTGTGCGGTATNTAAAGGAGAAAGAGATCACAGAAGAATTCTTGTTCTGTGAACCATTGCAATTAACTACGAAAGGAATCGATGTGTTCAATCTCGTCAGAGACTTCTTTTTGAAGCATAAGATAACGCTTGACGCATGTGGATCAATTTGCACCGATGGTGCCCCTGCTATGCTAGGAAAAAANTCAGGATTTGTTGCCTGCGTAAAGAAAAAAGTACCTCATATCATGATCACACATTGTATGTTGCACCGTCATGCACTTGCCGCAAAGACTTTGCCTACAAAATTGAAGGATGCTTTGTCTACTGCGGTGAGCGCAGTAAACTTCATCAGAGGACGTGCTCTAAATCATCGCCTCTTCCGTGCTTTTTNTGAAGAAATTGGTACCGAGCACACTGTCTTCCTTTTCCATACAGAAGCGAGGTGGCTTTCCCGTGGCCAGATGCTTACTCGTATTTTTAAAATGTGTAAAGAAATGAATCAGTTTCTTTNCAACCAAAGCAGTAATTTAGTTGATGACTTTGAAAATAGAGAGTTTATCCTTCGCCTAGCATACATGGCAGATGNATTCAAACACCTAAATGAACTCAACACATCTATGTAAGGAACTGGGATGAACGCGGTAACGGCCAGAGAGAAGTTATCTGCTTTTATTAGGAAACTTCCAGTTTGGATAAAGCATATTGAGAAAAGAAATTTTACTAACTTTCCTTTTCTTGAAGAAACAGTTGTTTCAGAAAATGAAGGAATGACCATCGCAACTGAAGTGACAATGCATTTGCAACAGTTGAGTGACTCTTTCCATGGATATTTTTCCACTGGAGATCTTGATGTGGCAAAGAAATGGATACTGGATCCATTTCTTTTTAACCTGGATTCCATCGACGATAGTGATTTGATGAAAGATGATCTCACTGAATTACGAGCCAATGGCCAAATCTAAATGGAGTTTGAGACAATAAAGCTTGAGAATTTCTGGTGTGCTCAANTAGCACCATTTCCACAACTGGCGAAGACAGCGCTGGAGATCCTTGTGCCATTTGCGACTACATACTTATGTGAGATAGGATTTTCATCACTTTTACACATCAAAACAAAGGCCAGAAACTACTTAAATGCGAGTGATGACATACGTGTGGCTATTTCAAAAAAGTTCCTCATTTCTCGAATATCATTGAACAAAAGCTANAGCAGAAGTCACTGAGCCGGTAAACTTTTNAAGNGATAATTTTATAATTTTATATTACTGTNAAAATTAAACTGTAATTCTGTCTCTTTCATTCTATAGTTATGATATATCTTAAGTTTAAAGAACTAATCTNCTTCAGTAATTTTTGATAAGAGGTGTGAGAANATATTTTGAGAACAAAAGGGATGCAAGCCGCAGNAAAGGTTAAGNACCACTG
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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 |
|---|---|---|---|---|---|---|
| Charlie11 | ESRRB | 400 | 409 | - | 18.10 | TCAAGGTCAT |
| Charlie11 | phol | 51 | 60 | + | 17.89 | CGCCATATTG |
| Charlie11 | O2 | 89 | 100 | - | 17.53 | TGCCATATCATC |
| Charlie11 | MYF6 | 1514 | 1523 | - | 16.61 | AACAACTGTT |
| Charlie11 | ESRRA | 401 | 409 | - | 16.33 | TCAAGGTCA |
| Charlie11 | Atf-2 | 645 | 655 | + | 16.20 | AATGACGTGAT |
| Charlie11 | Nr5A2 | 401 | 409 | + | 16.13 | TGACCTTGA |
| Charlie11 | NAC071 | 893 | 907 | + | 16.10 | CTTCTTTTTGAAGCA |
| Charlie11 | Esrrg | 401 | 409 | - | 15.85 | TCAAGGTCA |
| Charlie11 | RARG | 395 | 407 | + | 15.79 | CGGACATGACCTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
