Charlie4
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000024 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Metatheria,Eutheria |
| Length | 3378 |
| Kimura value | 23.67 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie4 subfamily (autonomous) |
| Comment | Active in common ancestor of all eutherians. |
| Sequence |
CAGGGGTTCTTAACCTGGGGTCCACGGACCCCCAAGGGGTCCGTGGATAGAATTCAGGGGGTCCGTGAACTTGGATGGGAAAAAATTACATCTTTATTTTCACTAACCTCTAACTGAAATTTAGCATTTCCTTCAATTATGAATGTAGGCAACAAACCACAGTAGTATTAGCAGTACCTGTGACTTTGTCACCAATAGAAATCACAGATATTTTCATATCACATTACAGTTGTTGCAGATATCTCGAAATATCGTTTACGCTCATCACTACTTCGAAATTACGGTAGTTATTAGACCCGCCGCTAGATCGCACGTGATCGCAGTCTTCCTGTCTACAGATGCTCGTGCGACGTAGCTGGCCAACTATCGGGCAACTCTGCGCCTAGTAGTCGTTCAGCCACCAAACGGTGAAGTCGCGTGTTCTCACATTGGTGACCCAGACATCTACGTTGCTTTCCAGTATTCCCTATCTACAATTGTTTGTTGATCAATACGTGGAAGGAGGTGAGTCGTTTTCATTGTTTGNTAAAGTTTTGCAAAACTGGACGGTTCAAATGAGAATTCTTAACTCTCCGTAAGGCAGCGCGGCCTTTTGTAACACGGATAGGCGCGCGGGCTACGAGTGTAGACCAGGCAAGTTCAAATACATCTGACGGTTGAGATAACTGCTGAAGTGTGTTATTTAAAGTAACTTNTTATTGCTAACAGATTGCGCAGTGACGTAGGTCATGCACAGTGTTGTAAGCTCTGTGAAGCAGAGNTTCTTTTCTATTTGTTTTTCTCTTTGTACTCCTTTTTTGTACACTGTCTGTGTTACGAAGTAAAGGCATGCACATACANTGTGTTGTACAAGTGGTATTCGTGTATTATTNTTCCGTGAAAATACCGCATATTTNAAAAATAACTTCGCGAGAAACANTGACAATATCAGAAATGAGAACCATTATTTCTAAGAAGGCACAGAAAGCCACGCGACTCCACGCTCGACACTAGCTAAATTTCAGGAAGGACATGNCTTCTGAACTNCTGCTGTAATCCNCGCGTCTACGTAAGGNTTAAAANNATTAAAAGTGCTNAAANNTTGGATAAATTATAAAACCTGTCTTATTTTACTCGCTNGTCATACAAATTTCCGAATATCNTACANTCTACTTAATTAACATACAAATTACTTCNTTCTATGCAGATTTATCAAANAAATTANTTAAAAGCCNTACGAAAATATNGAGTTTCAAAGNATGTCAGTTGAATCAAACGTTTTATTTTAGCATTATTTATTTTATTTTTTACAGACCCAATTTAAGTTGNAGTGTCGAAGAAAAGGACGNATGATGAAGACCGTGTATTATACGGTTTCGCTTNCATTANTGAACGTGATGGGACACAAAAGCCACAGTGTTTTTTGTGTGNAAAAATTCTTGTGAATNGAAGTATGAAACCAGNGAAACTGAAAGAGNACNTCACATCTGCCCATCCTGAAAACGCATCTAAANACGCGAGTTTTTTTNGTGTGAGGAAAGTTCAACTCGAAAAAGCTGGGACACTTCCNAAACGTNGATTTGCCGTTTCACAAAAACCTTTTCTCGAAGCATCCTATAAAGTTGCNNNNCCGNTCGCCAAACGNAAGAAGCCTCACACTACTGGAGAGGCTTTAGTAAAGCCATGTGCGCTGGAAATGGTCGAGCTGGTTTGTGGACTGGAACAGAGGAAAAAGCTGGAAGTGGTTCTTTTGTCAAATGATGTGATACGTTNTGGAATAGTTGACATNTCTTTTAACATTTTGAAGCGAGTCATCGAGGAATTGGCGNCCTCGCCATTCCCCTTCANTATGCGACTGGATGAAACTACAGACATCTCTCAATGTAGCCANCTCCCTNTTTTTGTTCACTATGTGCATGCTGACGCCATCAAAGAAGAATTCTTATTTTGTGAGTCCCTTTTGGAAACTACAAAGGCTGCCGATGTTTTGGAAATGGTAAAAGGTTTTTTTGCCAAACAAAACTTTGACTGGAAANAAAAGCTTCATACTCTTTGCACAGATGGAGCTCCTACAATGCNTGGCGATGCATCTGGTTTTGCTACTTTAGTGAAAAAGGAAGCNCCTCACGTCGTCGTCACTCATTGCNTTTTACACAGNCGTGCACTGGCAACAAAGACTCTTCCAACAATCCCGAAAGAAGTTTTGTCAACAGCCATAAANGTCATCAACTTTATCAGAAGTAGGTCTCTGAATCACGNCATTTTNAAAAAATTTTGTTAAGAAATGGGAGCAGAATATGAAGTGCTTCTCTACCACACAGAAGTTCGCTGGCTTTCAAGAGGACAAGTCTTGAAGCGCTTGTTCAAACTAAGGGCAGAAGTTTTACNTTTTCTGAAAGAAAAAGAAAACCCACTCTCGGAACACTTTGAAAGAAAGNATTTTATCCATGGGTTGGCTTACCTGGCAGATATTTTTAACCATATGAATGAGATAAATCTTTCAATTCAAGGTCCTGAAGTCACCATTATGGATGCTACTGAAAAATTACAAGCTTTCTTGGCTAAGCTGCCGATATGGAAGAAGAGAGTAGAGGCCGACGTCCTTGCAAACTTTCGAATGCTGGAGGAAGTGCTTTNCCANGACGAAGTTGAGATACAAAATTCTCTGTCAATTTCTTTGAAAAGAGAAATCTGCAAACACCTGGAAACACTTCAGAACTCTTTCAAAAGTTATTTCTATCTTGATGGCATCAAAGTTGAACCATGGATCCGCAATCCTTTTCTTTCTGATATAAACTGTATCGAAGATGTTGACCTAGCCAAAGATGAACTCATTGATCTTAGGACAAAAAACTTACTACAACTGGAGTTTAACTCAAAAAGCCTTGGAGAATTCTGGTGTTCCTTGAGAGAAGCCTATCCTCGCCTTGTAAAGCGAGCTACGGAAGCTTTAATTCCATTTGCAACAATATATCTTTGTAAATCGGGATTTTCAACACTTGTAACCATCAAAACAAAAAATCAAAATCGACTGGATGTCCAACATGACATGCGTGTTGCCTTGTCAAAGACCACCCCACAGTTTAATGTTCTTATTCAAGCTAAGCAACAACAGCCTTCACACTGATATGTCTTTAAAAAATAAAATTTAACTTTAACTTGCCTATATTTTAAATGTATTGTCTTATTATTTAATGCGTTAATAAAGAAGCACATATATTACTATATCACAAATTTGTTTTTAAATATTTTGATAACTATATTTCAATATAATTGGTTTCCTTTGTAATCCTATGTATTTTATTTTATGCATTTAAAAACATTATTCTGAGAAGGGGTCCATAGGCTTCACCAGACTGCCAAAGGGGTCCATGGCACAAAAAAGGTTAAGAACCCCTG
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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 |
|---|---|---|---|---|---|---|
| Charlie4 | ceh-10::ttx-3 | 3252 | 3265 | + | 15.49 | ATTGGTTTCCTTTG |
| Charlie4 | RVE7L | 206 | 214 | - | 15.47 | AAAATATCT |
| Charlie4 | RVE7L | 2446 | 2454 | - | 15.47 | AAAATATCT |
| Charlie4 | ETV5::FOXI1 | 325 | 336 | - | 15.45 | GTAGACAGGAAG |
| Charlie4 | TCP16 | 18 | 25 | - | 15.32 | GTGGACCC |
| Charlie4 | DOF4.2 | 3359 | 3369 | + | 15.27 | AAAAAGGTTAA |
| Charlie4 | ANL2 | 3168 | 3177 | - | 15.23 | GCATTAAATA |
| Charlie4 | HDG7 | 3168 | 3177 | - | 15.23 | GCATTAAATA |
| Charlie4 | SFP1 | 2246 | 2255 | + | 15.11 | AAAAAATTTT |
| Charlie4 | NDT80 | 1381 | 1389 | + | 15.06 | GACACAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
