Charlie9
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000108 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 2787 |
| Kimura value | 23.76 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie9 subfamily (autonomous) |
| Comment | Present in all eutherians, but absent in opossum & monotremes |
| Sequence |
CAGTGTTTTTCAAACTGCGGGTCGCGACCCATTAGTGGGTCGTGAAATCAATTTAGTGGGTCGCAACCAGCATTTTTAAAAGTAAAATGAAATAGAATAGAATAGAAAATATCAGAGTGCATCGCACGGATCCTTAGCAAGAACTGCGCACATTGCAACAAATACCGCGGCCAATTGCAATGNGCGAGAAGACAGTTAGTGGAGGGGATGTGATGAANACACGCATATTGGCTAGGAATGGGTCATTCGATCTTTTGCTCACTGGCATCTCNTTNGATTTTCNGGTATACGATGGTCAATTTGATCATCACCGTAACGGGAGGGTTAACGTTGTACAGTTTAATTTTATATTAACATAATTTGCAGTTAGTTGTGAAGCGAAGTGCGGGAGAATTTTATCCGCTGTCGGCAAAANTGTCGAGACTTTCAACCGAGTTTCGGTTACGAACTTTCAGTGTGTTTTTCAGAAAGGACGTTATCGAGTGTGACATTTTTCAAGTTCGTGACAATTGTAACATTTTAATCGAACTAGTACAAATTGCCCTTAAAATGGATCGCTTTATTATTAGAAGAAAAAAGAATGATGAAGTGAAAAATACAGAGGCATGTTCAAGTTCAACTGCTGGATCTGGAAGTGTAAATAGTGACAATATTGAGAAAAATGTTGACTCTAATCAGCAAACTTCGACTTCATTTGAGCCGCATTCTAAAAAGAAAAAAGTAAGTGCAAGACTTTATAATGAAGATTATTTAAAATATGGTTTTATCAAATGTGCAAAACCCANTGAAAATGACAGACCCCAATGTATTATTTGTAATGATATTCTTGCAAATGAAAGCTTAAAACCTTCAAAATTAAAAAGACACTTGGAAACACAGCATGCTGAACTTGTCGATAAGCCCCTCGAATATTTTCAAAGAAAGAAAAAAGACGTAAAGTTATCGGCACAATTTCTTAGTCGTTCTACGACTGTTAATGAGAAAGCCTTATTATCATCATATTTAGTTGCATATCGTGTGGCAAAAGAGAAAATGGCTCACACAGCTGCTGAAAAAATTATTCTTCCAGCATGTATGGATATGGTGCGTACGATTTTTGATGATAAATCAGCTGATAAATTAAAAACTATACCTCTTAGTGATAACACAGTATCTCGTCGAATCTNTACTATTGCAGAACATTTAGAAGCAATGCTTATTACGCGGTTACAGTCTGGTATAGATTTTGCGATCCAACTCGATGAGAGCACTGATATTGCAAGTTGCGCAACACTTTTAGTTTATGTCAGATATGCGTGGCAAGACGATTTTATGGAGGATTTGTTGTGTTGTTTAAATTTAACCTCACACACAACTGAATTAGACATATTTACAGAATTGGAAAAGCGCATTGTTGGTCAANATAAATTAAACTGGAAAAACTGTAAAGGAATNACGAGTGATGGAATAGCAAATATGACTGGAAAACACGGNAGAGNTATTAAAAAATTGTTAGAAGCTACTAATAACGGTGCTATTTGGAATCACTGTTTTATACATCGCGAAGCTTTGGCGTCCAAAGAAATTCTACCGAATCTCATGGATATATTGAAAAACGCAGCGAAAGTTGTTAATTTTATTAAAGGAAGCTCACTGAATAGCCGACTTTTTGAAATATTTTGTTCAGAGATTGGAGCTAACCATNCCCGCTTACTGTATCANACCGAAGTTCGTTGGTTGTCGCGAGGGAAAGTGCTAAGCAGGGTGTATGAACTCAGGAATGAGATTCACATTTTTCTAATTGAAAAGCAATCTCATTTGGCAAATATTTTCGAAGATGATATTTGAGTAANAAAATTGGCATATTTAACTGATATTTTCGGCATTCTTAACGAACTAAATTTGAAACTNCAGGGGAAAAACAACGATATATTTCAACATGTCGAACATATCCAAGGATTCCAAAAGACATTATTGTTATGGCAAGCAAGACTTAAAAGTAATCGCCCTAGCTACTATATGTTCCCAACATTGTTGCAACATATCGAAGAGAACATTATTAATGAAGACAGTTTGAANGAAATAAAATTAGAGATATTGTTGCATCTCACTTCTCTGTCTCAAACTTTTAATCATTACTTTCCAGAAGAGAAATTTGAAACATTAAAGAAAAATANTCGGATAAAAGATCCATTTGCTTTTCAAAACCCTGAATCAATAATTGAGTTAAACTTGGTGCCCGAAGAAGAGAATGAATTATTGCAGCTTAGTTCTTCATTTACACTGAAGAATGATTATAAGACATTAAGTNTATCATTATTTTGGATTAAGATTAAAGAAGAATTTCCATTGCTAAGTAGAAAGAGTGTATTGCTATTATTACCATTCACAACGACCNATTTGTNTGAACTAGGATTTTCAACCTTGACCCAATTAAAAACAAAGGAAAGAAACAGGCTCAACAGTGCACCAGATATGCGNGTAGCATTGTCCTCGTGTGTTCCGGACTGGAATGAACTTATGAACAGGCAAGCACACCCGTCGCATTAAATAAAATCTTTCCTAATTTTTGTTTTTGTATTGTTTATTTTGGANTATTTTTCTATGTTGTATTTAAATATTAATAAAATCATATTTGATATTAACTTTATGTTTTTACTTTTATCATACGTAGTAAGAGTAAGTATTGTTTCATGAAACTTTGTTTCAGTTGATATNTGTGCGTTATACGCGTATGTGTGTACTGGGTCGCGATGTAAAATGTATTTCTTACTGTGGGTCGCGGTCAAAAAAGTTTGAAAAACACTG
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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 |
|---|---|---|---|---|---|---|
| Charlie9 | ATHB-7 | 2194 | 2204 | - | 16.15 | TCAATTATTGA |
| Charlie9 | TFAP4 | 1107 | 1116 | + | 16.05 | ATCAGCTGAT |
| Charlie9 | TFAP4 | 1107 | 1116 | - | 16.05 | ATCAGCTGAT |
| Charlie9 | ZHD3 | 2195 | 2203 | - | 15.98 | CAATTATTG |
| Charlie9 | DOF5.1 | 2625 | 2643 | - | 15.97 | TAAAAGTAAAAACATAAAG |
| Charlie9 | TSO1 | 2592 | 2606 | - | 15.93 | TTATTAATATTTAAA |
| Charlie9 | CEBPG | 1262 | 1271 | + | 15.92 | GTTGCGCAAC |
| Charlie9 | CEBPG | 1262 | 1271 | - | 15.92 | GTTGCGCAAC |
| Charlie9 | blmp-1 | 1023 | 1033 | + | 15.87 | AAAAGAGAAAA |
| Charlie9 | Foxq1 | 2559 | 2568 | + | 15.87 | ATTGTTTATT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
