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
|
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 | BPC5 | 631 | 660 | - | -41.00 | GGAAATTAACAGACAGGAAAATAGAAAGCA |
| Charlie12 | BPC5 | 285 | 314 | + | -47.56 | AAATTAACTAACAAAGAGCGAGAGGACGCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
