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 | RVE5 | 2446 | 2454 | + | 16.21 | AGATATTTT |
| Charlie4 | TCX6 | 3219 | 3233 | + | 16.19 | TTTTAAATATTTTGA |
| Charlie4 | RVE8 | 206 | 214 | + | 16.08 | AGATATTTT |
| Charlie4 | RVE8 | 2446 | 2454 | + | 16.08 | AGATATTTT |
| Charlie4 | bigmax | 311 | 319 | - | 16.02 | GATCACGTG |
| Charlie4 | USV1 | 53 | 62 | - | 15.98 | ACCCCCTGAA |
| Charlie4 | LHY | 206 | 214 | + | 15.86 | AGATATTTT |
| Charlie4 | LHY | 2446 | 2454 | + | 15.86 | AGATATTTT |
| Charlie4 | RVE1 | 206 | 214 | - | 15.59 | AAAATATCT |
| Charlie4 | RVE1 | 2446 | 2454 | - | 15.59 | AAAATATCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
