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 | SP3 | 1114 | 1124 | - | 16.38 | GCCACGCCTCC |
| Charlie12 | BZIP28 | 322 | 331 | - | 16.38 | TCACGTGGCA |
| Charlie12 | RVE7 | 2434 | 2442 | + | 16.38 | AAAATATCT |
| Charlie12 | HNF4A | 2289 | 2297 | - | 16.35 | CAAAGTCCA |
| Charlie12 | HNF4G | 2289 | 2297 | - | 16.35 | CAAAGTCCA |
| Charlie12 | NHLH2 | 2368 | 2383 | + | 16.31 | GGCAGCACCTGCGTTT |
| Charlie12 | RVE6 | 2434 | 2442 | - | 16.23 | AGATATTTT |
| Charlie12 | RVE5 | 2434 | 2442 | - | 16.21 | AGATATTTT |
| Charlie12 | CG3065 | 1114 | 1124 | - | 16.11 | GCCACGCCTCC |
| Charlie12 | RVE8 | 2434 | 2442 | - | 16.08 | 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.
