Charlie11
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000084 |
|---|---|
| TE superfamily | Charlie |
| TE order | 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 | NTL8 | 224 | 231 | + | 14.41 | GAAGAAAC |
| Charlie11 | DOF1.5 | 995 | 1010 | + | 14.38 | AAAGAAAAAAGTACCT |
| Charlie11 | nfi-1 | 50 | 64 | + | 14.35 | CCGCCATATTGCCGG |
| Charlie11 | nfi-1 | 50 | 64 | - | 14.35 | CCGGCAATATGGCGG |
| Charlie11 | Jun | 748 | 755 | - | 14.31 | TGACTCAT |
| Charlie11 | MGA | 2133 | 2140 | + | 14.27 | AGGTGTGA |
| Charlie11 | F10B5.3 | 1951 | 1961 | - | 14.26 | TATTCGAGAAA |
| Charlie11 | ZNF558 | 2048 | 2076 | - | 14.23 | ATAGAATGAAAGAGACAGAATTACAGTTT |
| Charlie11 | HSFA1B | 1448 | 1455 | + | 14.20 | GAAACTTC |
| Charlie11 | Sox14 | 2154 | 2164 | - | 14.20 | CCCTTTTGTTC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
