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 | ZNF680 | 1909 | 1919 | + | 17.27 | CAAAGAAGAAT |
| Charlie4 | RVE4 | 206 | 214 | + | 16.53 | AGATATTTT |
| Charlie4 | RVE4 | 2446 | 2454 | + | 16.53 | AGATATTTT |
| Charlie4 | ZKSCAN5 | 501 | 509 | + | 16.46 | GGAGGTGAG |
| Charlie4 | RVE7 | 206 | 214 | - | 16.38 | AAAATATCT |
| Charlie4 | RVE7 | 2446 | 2454 | - | 16.38 | AAAATATCT |
| Charlie4 | ERF::FOXO1 | 325 | 336 | - | 16.37 | GTAGACAGGAAG |
| Charlie4 | RVE6 | 206 | 214 | + | 16.23 | AGATATTTT |
| Charlie4 | RVE6 | 2446 | 2454 | + | 16.23 | AGATATTTT |
| Charlie4 | RVE5 | 206 | 214 | + | 16.21 | AGATATTTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
