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 | Rarg | 1113 | 1129 | + | -6.20 | AACTTCATCAGAGGACG |
| Charlie11 | ZSCAN16 | 1083 | 1100 | - | -19.45 | CGCAGTAGACAAAGCATC |
| Charlie11 | BPC5 | 2051 | 2080 | - | -25.12 | AACTATAGAATGAAAGAGACAGAATTACAG |
| Charlie11 | BPC5 | 2045 | 2074 | - | -37.44 | AGAATGAAAGAGACAGAATTACAGTTTAAT |
| Charlie11 | DAL81 | 879 | 897 | - | -39.70 | AGAAGTCTCTGACGAGATT |
| Charlie11 | BPC5 | 2053 | 2082 | - | -48.65 | ATAACTATAGAATGAAAGAGACAGAATTAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
