Charlie16
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001313 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 3051 |
| Kimura value | 30.38 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie16 subfamily |
| Comment | Autonomous Charlie hAT transposon. ORF ~759-2792. 16 bp TIRs. |
| Sequence |
CAGTGCTTCTCAAACTGGGGTACGCGTACCCCCGGGGGTATGCAGTGGCAGAGGGGCAGTACGAAGCCACAGGATAAACATGGCGCATCTTCCTGGAGCGTCAATTTTACTCGAAGATTTGGGGGAAANAAGTTTTGAATTTTTGCGCTCTTAAAAGGTTTTGTCACATGCATGCGCAAGCAAAATCAGCAGAATCCTACTTTTCCATGTCGGCCAATCTCGTGTTTTTTCGTGAAAGCCCAGAGAGCAGAAAATTTTTATGTGCAGTGAGTGATTGGAAAATTTGGTACTTTTGTGTTATCGGGGAACCCGGTGGTATTAGCGCTGCAGTCGCGTCAAAGTGAACAGAGCGCGCANCGGCANTAAAACGGATTATGCCANNTCCNTGNCCNCAGTGGGGGCTGNTNATGCCANNGCAGAAGAGCNGGAGCGTGTGATTTCTCGGCAAGTCCGNGGAGGCCTACACAGCTAGCTTTTTGAAAAACGAGTTTGTCACCTTATAAATGCGGTTNTTTTTNACTTTTGATTACACAAAAANNCATTGGCTCCCACAAATCAGTTCAACTTCCTGCCGCAATTGCGCTCGATCAAATGTTTTGTTTACAAACATGCGACTACGCTTAGTTCTACTTCCCGCCACAGTGAGTTCCCCGATAACACAAAAGTACCGAAAATTCTGGNTTTTGTGATTTTAGTGTCATTCTTCATTTACCTTTTTAAAGTGTAATAATTTTAAAATTATATTTTCAACTGGGAACATGGATCGGTGGTTAAAAACAGGAAGTTTGAAGCGTAAGCTTGAAACCAGTGAAAATACGCAAGATAATGAGGGAAATTCAGAACAACCTGAAATCATCGAGGGTTGTGACAGACATGGCGTTGTCCCTGAGGCTCCCCACAATGAACTTGACAGTAAAGAAGATGATAGCACTACCCCAACCACAACTAGTGAATCGGTAGTAAGCAGCAGCAGTCAATCTAAAAAGCGTAGGATGTACTTAGATGCTTATTTAAAATATGGGTTTTATTATTGTGGAGATGCAAATGAGCCTAAACCTTGGTGTCTCTTGTGCGAGAAAACCCTGAGCAATAACTGCATGAAACCATCACTCTTGCAGCGACATTTAAAAACCAATCATGCAAATTTTGAAGGAAAATCACCAGAATTTTTTGCAACTAAAAAGAGAGAAGTCTTGGCTAGGAGCAATACAATGAAAAGCACAATCAAACAAGCAAATAAAAAATTGCTTGAAGCTTCCTTCAAGGTCAGTTTCAGAATCGCCTTGGAAGGTGAAGCTCACGTAATAGGAGAAAATTTGGTGAAGCCCTGCGCTGTAGATATGGCCGAATCTGTTTTGGGTCAAAAAGAGGCAGCCAAGCTGAAAAAGGTGCCCTTATCGAATGACACCGTCAAACGACGCATTTTAATGTGCTCAAAAGACATACTTGAACAACTGGTTGAGAGACTGAGGTTAACCCGGTTCTTTACCTTACAGTTGGATGAAAGCACGGACGTTAATGATTTGGCCATTTTATTGGTCTTTGTTCGCTATATTTATAATGATGATGTCTGTGAAGACATGTTAATTTGCAAAGTGCTTGATGGTAAAATAACTGGTGAAGAAATTTTCAACAAGATATGTGAANNTTTTAGCGAGCATGGTATCGACTGGAAAAAATGTACGGACGTGTGCACAGATGGGGCCAAATCTATGACGGGCAAAACTGCGGGAGCGGTAGCCCGCATCAAGGCCATTGCGCACCCTGAATGCACCAGCAGCCACTGCATCATTCACCGAGAACACCTCGCCTCAAAGAGTTTGCCTCTTGATTTTCTCAGTGTGTTCAATGGGGTGGTAAAAATGGTAAATTTTGTAAAAAACAGTGGTTTGAATACTTATCTTTTTAGACAAATTTGTAATGAAATGGGAAGTGACTTTGAAAGCTTGCTCTACTACACAGATGTATGCTGGCTTAGCCAGGAGAAGGTGCTGGTCAGAGTTTTCGAACTCAGGGTTGAATTGTTATTTTTCTTCATGGAGAAAAAAAATATCACGACAAAGGGTAAAAACCTGGATAAGGTGAATGAATTCATTGTTCACCTTAATGATAAAGAGTGGCTCACAAAGTTGGCTTATTTAGCAGATATTTTTTCAAGGCTGAACACTCTCAATCAACAACTGCAAGGCAAAACTGTGAATGTTTTTACTGCACATGACAAGATCGCTGCAATGAAAATGAAGTTTGAGAGTTGGATGAAGAGAGTTGATCGTGGGGACTATGAGTCGTTTGAGACTCTTAGTTCATTTACATGTGATGAAAATTACAGCGTTAGTGGTAAAATAAAGAATAACATCATCAGTCATCTTTCTTCACTGAAAAAGTCCTTTGATGAGTATTTCCCTGAGACAGTAAAAGAGACTGACCAGTGGATCAGAGACCCTTTCAGTCCGCCATATGACACAAGCGACTTGACCTCTCAGCAAGAAGATACACTTATCGAAATTTCCACCAACAGTAGCCTGAAAACGTTGCACCGTACCACCTCTTTGGCAGCATTCTGGGCATCTCTCCTCAGTGATTACCCTGACATAGCTCGTAAAGCAGTGAAAAAACNGTTGCCATTTGTATCCACATATTTATGTGAGTCTGGGTTCTCGAAATATTGTGACACCAAGACAGAGAAGAGAAATTGCCTGGATGCTGAACCTGATATGCGGCGTCAGCTCTCTTCAATTCAGCCCAATTTTCCGAAATTGATAGACTCAATGCAACAGCATCTTGTCCATTAACCAATGAGACAGGTAGGAAATGTTTTCCTTGATGGTAAGTAATTTAAAACATTATTTTTTATATTAAAACAAACACGGATATATTATGGAGTAGAATGCAAAATTCGCATGAATTTTTAAGATAAAACGCGAGACTTCAAAGAAATTTCGCGCTTGTGGCAGGGCTGCTTCGGGCTATGCCCCCAGACCCCCCGGGGGGTACGCATTCACTCTCCTCTGCCGTTAGGGGTACTTCGGTGGAAAAGTTTGAGAAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie16 | SPL5 | 1680 | 1688 | + | 16.23 | TGTACGGAC |
| Charlie16 | RVE6 | 2144 | 2152 | + | 16.23 | AGATATTTT |
| Charlie16 | RVE5 | 2144 | 2152 | + | 16.21 | AGATATTTT |
| Charlie16 | Prdm15 | 2067 | 2077 | + | 16.20 | AAAAACCTGGA |
| Charlie16 | lmd | 2978 | 2989 | + | 16.20 | GACCCCCCGGGG |
| Charlie16 | Nr5A2 | 1261 | 1269 | - | 16.13 | TGACCTTGA |
| Charlie16 | GLIS2 | 2978 | 2991 | + | 16.11 | GACCCCCCGGGGGG |
| Charlie16 | RVE8 | 2144 | 2152 | + | 16.08 | AGATATTTT |
| Charlie16 | LFY | 758 | 776 | + | 16.04 | CATGGATCGGTGGTTAAAA |
| Charlie16 | LFY | 758 | 776 | - | 16.04 | TTTTAACCACCGATCCATG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
