Charlie13b
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000087 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Mammalia |
| Length | 512 |
| Kimura value | 31.78 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie13b subfamily (non-autonomous) |
| Comment | Vague 8bp TSDs flank the current ends. |
| Sequence |
CANGGGCATCCAACATGCGGCCCGCGGGCCAAATGCGGCCCGCCTGACCCCAGGGTGCGGCCCGCCTGAGATTTTTAGCAAAAATGTTTTTACCTAATTAGCTAGCACACATGAACTAGTAGGGCCAGNAGGGCCTAACCACCTGCCCGCCGCACCACTGTGTAACTGACTGCCGCCAGGTGTCATGCTAGCAGGCTTGGATCAATTAGTAATTGTAATTGAAGCTGAATGTAATTAATTATATAATTTTGAGCTGTTCAAGTTTAATTCCACTAAAATTACATCATGAAACTGGGGCATTATGAAGGATTACTGACAAAAGGAAAATAGGTATGAATAAAGCCTCCATATGCACTTGACTCACGTTTGAGTCACGTCCAATACTCGTACGCCAAGCGTGGACCCTCTCGACTCACCATTGTTATCAATAAAAAAATTCATGCGGCCCGCACACATATGGATTTCTGATCATGTGGCCCACTATTGAAAAAACNTGGACGCCCCTGCCCTAG
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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 |
|---|---|---|---|---|---|---|
| Charlie13b | IG1 | 170 | 178 | + | 16.76 | CTGCCGCCA |
| Charlie13b | knrl | 289 | 299 | + | 16.56 | AAACTGGGGCA |
| Charlie13b | JUN | 278 | 287 | - | 15.78 | ATGATGTAAT |
| Charlie13b | Znf423 | 45 | 59 | - | 15.75 | CGCACCCTGGGGTCA |
| Charlie13b | CUP2 | 76 | 86 | + | 15.41 | TAGCAAAAATG |
| Charlie13b | TCP16 | 398 | 405 | + | 15.32 | GTGGACCC |
| Charlie13b | MYB80 | 89 | 100 | + | 15.26 | TTTACCTAATTA |
| Charlie13b | ZHD9 | 232 | 246 | - | 15.25 | TTATATAATTAATTA |
| Charlie13b | MYB49 | 90 | 100 | + | 15.18 | TTACCTAATTA |
| Charlie13b | Lhx3 | 232 | 243 | + | 15.18 | TAATTAATTATA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
