Charlie13a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000086 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Mammalia |
| Length | 1514 |
| Kimura value | 32.78 |
| Tau index | 0.9930 |
| Description | hAT-Charlie DNA transposon, Charlie13a subfamily |
| Comment | - |
| Sequence |
CAGGGACATCCAATATGCAGCCCGCGGGCCAAATGCGGCCCGCCTGACCCCAGGGTGCGGCCCGCCTGAGATTTTTAGCAAAAATGTTTTTACCTAATTAGCTAGCACACATGAACTAGTAGGGCCTAACCACCTGCCAGTAAGGAATTTGAGAAGTTTGGTCTAAACATGGAAAAGCTGAGTTCACTTGCCACAGATGGGGCACCTGCAATGAAAGGGAAGAAAGGTTTCAACAGTTTATTCAAGTCAAAAGAGAAGGTTGGTGTGCCCAGCTTCCATTGCATCATTCATCAGGAGAGTTTGTGCTGTGAACTTTGCAAGTCAGGTTCATTGCATGATGTGATGGAGGAAGTGATCAAGATTGTGAATTTTCTTCGTGCTCGTGCCCTTAACCATCGCCAGTTTATGGGATATTTGGAAGAAGTTGAAGCAGAGTATGGAGATTTAGTTTATTTTAATGCAGTCAGATGGCTAGGTCGTGGAAACTTGTTGAAGAGATTTACTGAGCTGCTTCCTCAGATCAAGGACTTTTTGGAATTAAAGGGCTCTGAGAGACCCAACTTGTCGGACCCCCAGTGGCTCACAAGATTGTACTTTCTTACTGATGTGACAAGACATCTGAACACACTGAACTTGAAACTGCAGGGAAAAAACAAGAGCATTGCTGATTTGTTCAAGGAAGTGCAGGTATTCAGACTCAAACTGGACATGTGGATTGAGCAGATGGCAACTGGAGACTGCACTCATTTCCCATTGCTGAACTGCCCTGAGCTCAATGGAATCACAGATTTTGAAGAACTGCAGAGCTATTTGGTGGAAATGAAGTCACAATTTCAGAAGAGATTCACAGATTTTGATGAGTATGAATCATGCTTTAAGTTTCTGCGGCTGCCTTTGGAGTGCAAACCTCAGGATGTGTCTGAATTATCAAGCATCTGCCCTATCAGTGTGGCTCAGTTTCAAGAGGAACTGATTGAGCTGAAAGCGAACTATGCCCACCAAGAAGACACAGTATCCCTGGAATTTTGGAGATGAGTATATGAATCCCAGAACTATCCTGAAATTTCTGGCTATGTGGCCAAACTCTGGGCAATGTTTGGGTCCACCTGGCTCTGTGAAAGTACATTCTCTTTCATGAAACTGCTGAAATCGAAGCTGAGAGCCACCATCAGTGATGTAAACCTGGAGTCAGAATTGAGATGTGCCCTGACTGAATACACCCCACAGTTCTCGAGAATAGTTCAGTCTGTTAAATACCAGTATTCTCATTGACTTGATCAAAATTGATCAATGACTAGCACTAGGCCTATAACTGTGCACTTTTGTATGAATAAAGTTGATTAAACTGTTTTTTGGACTGCTTTTGTATTACTGCTNAAAATCCATATTTTTGAATAGCTAACAGGCTATATTTTCACCATTGTTATCAATAAAAAAATTCATGCGGCCCGCACACATATGGATTTCTGATCATGTGGCCCACTATTGAAAAAACNTGGACGCCTCTGCTCTAG
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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 |
|---|---|---|---|---|---|---|
| Charlie13a | Rarb | 975 | 991 | - | -3.00 | AGTTCGCTTTCAGCTCA |
| Charlie13a | Rarg | 758 | 774 | - | -4.67 | GAGCTCAGGGCAGTTCA |
| Charlie13a | Sox21b | 652 | 666 | + | -5.95 | AACAAGAGCATTGCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
