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 | NR6A1 | 395 | 408 | - | 14.73 | CAAGGTCATGTCCG |
| Charlie11 | cnc::maf-S | 1033 | 1046 | - | 14.67 | ATGACGGTGCAACA |
| Charlie11 | skn-1 | 1859 | 1872 | - | 14.66 | AAAGTGATGAAAAT |
| Charlie11 | vnd | 475 | 483 | - | 14.65 | TCTCAAGTG |
| Charlie11 | MYF6 | 1514 | 1523 | + | 14.64 | AACAGTTGTT |
| Charlie11 | ftz-f1 | 402 | 409 | + | 14.63 | GACCTTGA |
| Charlie11 | elt-3 | 2126 | 2133 | - | 14.52 | TCTTATCA |
| Charlie11 | ZNF324 | 1494 | 1507 | - | 14.42 | AGAAAAGGAAAGTT |
| Charlie11 | AZF1 | 1650 | 1658 | - | 14.41 | AAAAAGAAA |
| Charlie11 | NTL8 | 1509 | 1516 | + | 14.41 | GAAGAAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
