Charlie12
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000085 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Rodentia,Strepsirrhini,Haplorrhini |
| Length | 2870 |
| Kimura value | 6.16 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie12 subfamily (autonomous) |
| Comment | A largely internally deleted Charlie12 is the source of MER30 elements. |
| Sequence |
CAAGCTTGTCCAACCCGCGGCCCGCGGGCCTCATGCAGTCCAGGACGGCTTTGAATGTGNCCCAACACAAATTTGTAAACTTTCTTAAAACATTNTGAGATTTTTTTGCAATTTTTTTTGTAATTTTGTNATTTGNCTATGTGATTCTCAAGTGTGAACTTCGTAGACAACAATGGAATGGAAAGGGGTAATCAGAGTATGTCACATCCACAAATAATGGACTAGTATCCATAATTTGCATTATAATTGCAAACAGTTCAGCAAGAAGAAATTAAAAGCCATTAAAATTAACTAACAAAGAGCGAGAGGACGCTATTGCAGTGCCACGTGAAGTGAATTGTGACAAAGAATTCAAGTGTGTATTCTGGACAAGGCAGAGCGCTGCTGTACACCAGACACTGTCGCCATTTGTACGCATGTGTGGCTTCAGTTTTATGGTGGTGTGCGACTTCCAGTGTGTTATCTTCTAATCACGGACAGTTGAATTGACACCGTCAGGCGTTANGTGTGCTTNTGGCGACTTGAGCAATNATATTCGATAATATTTCAACCTACCTTTGTAGATGATAGGTGTTTAATATTANTTAGAAGACNTGTAAGTATTAGTCTTCTTATTTGGTTATTAAACCTTGCTTTCTATTTTCCTGTCTGTTAATTTCCATAATAAANGTAAATNNAGTTGCTTATCTATTATNATCTTTTAAAATTCCAGNATATGGCTTCCACAATGTCTCAAAAGAAAACAAACCCCCCNNAAAACAAAAANTACGGATGAGGGAAGATTGCTCAACGAAAAGTGGACAGATGACTACTTTCTTGTCGAGGCAAATAGCGAGGCACTCTGCTTGATTTNCANGGAATTTGTGCCAGTTTCAAAGACTACAATTTGAAGAGGCATTATATGCAAAGACGTGCTGNCAAATTTGGTGCGTATCAAGGAATGTGTCGTAAGGACAAAAATAGCAGAACTGAAAAAANGTCTGTCTTCACAAAAAAGATTTTTTNNAAAGTTGCAACTCGGACAGTCTANNGTAAAANCTAGTTATGTGGTAGCAAATTTAATAGCAAAAAGCAAAACCATTTACNGATGGTGAGTTTATTAAGCAACGTNTGGGAGGCGTGGCANATATCATTTGCCCTGANAAANNAGAAGATATCTCTAAAATCAGTTTGTCTCGCCGGANTATAGCCAGGNGAATTGGAGAAATTGGGAAGTCTATGAAAGGAGNGTAAAACTGCTAATTTNAAATTTTGTGCTTTGGCGATGGATGAAGGCACTGACGCTACANATACGGCACAACTTGCCATTTTTATTAGAGGCATTGATGACGAATANAATGTCACCATTATATAAAGCCATATAATGAAGAAATNATAAACCCATATAATGAAGAAATGGCTTTTTCAGTGCCATTAAAAGACANAGTAAATCAAGAGATTTATACGAAGCAGTGAAAGATGCGTTAAAGCAATTTTCTTTGTNCNTTGTGAACATACGTGGTATAGCTACNGATGNTGCCCCGGCGATGGTANGTAAAAGAGAGGGANTTGTANAATTAATAGAAAATGATGCAGTTGCCGCNCGAAACTCACNTTTGATGANGTGTCATTGCATAGTACATCAAGAAAATTTATGTACAAAAGCTTTAAAAATGGATAACGTCATGCAAATTGTCATCAAGGCTGTGAATTTCACAGGGGCCNAGGGATTGAATCATCGCCAGTTCCAGGAATTCCTTAAAAGTATGGATGCTGACTNTAGCAACGTCATTCACTTTTCGGAAGTAAAGTCGAGGCAGATGTTGAAAAGATTTTATGNTTTGCGACGTGAAATCGAGCTGTTTATGGTATCAAAAACAAAATTNGTGCCAGAACTTGACGACGAAAACTGGCTTACAGATTTAGCATTTTTAGTGGGTTTGACCGCCCATTTAAGTGAGTTAAACNTGNGTCTTCAAGNTGAAAACCAACTTNNCAATACAATGTTTCAAACCATAACAGCGTTCCANATGNAACTGAAATTATGGCAAGCTNAAATTAAGGCAAACAGTTTTACGNATTTCGACACGTTNGCTAAACACGGNCCTGTNAACAGCNAAAAGTACGCNGCCTTGCTTTTCGATTTGATANAGGAATTTGAAAACAGGTTTCAAGATTTCTGGAAAAATNATCAATATTTTGGTATANTTGCAACTCCATTTTCAGCCGACATANATATGTTACCTGCGAATGCNTANAGCTGCAATNTGACGTTCAACTTANAGAAAAATCTNATCNNGCCTCTTTNCTGGACTTTGTAAGACCTGTCTTCCCAGNGACAAATATCCCTCGCTTCACAGTCACGCCTTGCTCATGTCGTCGNTTTTTGGCAGCACCTGCGTTTGTGAGCNACTGTTTTCAAGGATGAAGNACACGAAGAGTAAAATTAGAACCAAAATATCTGANGAGCACCTTGAGAACTCGCTGAGAATTGCAACTACTTCCATCGAGCCAGATACTGATGNATTAGTTTCTCAAAAACAATGTCAAGTACCCCACTAGTTTTATGTTGTCCTCTTTTACTTTTATAATAAAAANTATCAAAAAANTAGTGANGTTTTATTANCTAGATACGTACATTTTCTGTGTCAGTGATTGCAAANTTGGGACCTGCTCGACGATTTTGAAAGACCCTCTGAANGGGGCAGCGCATGGTTAGATTATNATGCGAGGACTTTTTTGCTTATCTGTGGTGGCGGATATCACGAAAATTATNCACGGACCTTTTTTCTTTAGCTCATCAGCTGTCGTTAGTGTTTGTGTATTTTNTGTGTNGCNCAAGACAATTCTTCTTCCNGTGTGGCCCAGGGAAGCCGAAAGATTGGACACCC
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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 |
|---|---|---|---|---|---|---|
| Charlie12 | D | 167 | 177 | - | 15.56 | TCCATTGTTGT |
| Charlie12 | RVE7L | 2434 | 2442 | + | 15.47 | AAAATATCT |
| Charlie12 | GBF2 | 322 | 330 | - | 15.33 | CACGTGGCA |
| Charlie12 | POU3F3 | 232 | 244 | - | 15.32 | ATAATGCAAATTA |
| Charlie12 | ZNF454 | 14 | 30 | - | 15.31 | GGCCCGCGGGCCGCGGG |
| Charlie12 | POU3F3 | 653 | 665 | - | 15.19 | ATTATGGAAATTA |
| Charlie12 | Lhx3 | 285 | 296 | + | 15.08 | AAATTAACTAAC |
| Charlie12 | Creb3l2 | 323 | 331 | + | 14.97 | GCCACGTGA |
| Charlie12 | DREB1B | 2205 | 2212 | + | 14.96 | GCCGACAT |
| Charlie12 | KLF16 | 1114 | 1124 | - | 14.93 | GCCACGCCTCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
