Charlie9
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000108 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 2787 |
| Kimura value | 23.76 |
| Tau index | 1.0000 |
| Description | hAT-Charlie DNA transposon, Charlie9 subfamily (autonomous) |
| Comment | Present in all eutherians, but absent in opossum & monotremes |
| Sequence |
CAGTGTTTTTCAAACTGCGGGTCGCGACCCATTAGTGGGTCGTGAAATCAATTTAGTGGGTCGCAACCAGCATTTTTAAAAGTAAAATGAAATAGAATAGAATAGAAAATATCAGAGTGCATCGCACGGATCCTTAGCAAGAACTGCGCACATTGCAACAAATACCGCGGCCAATTGCAATGNGCGAGAAGACAGTTAGTGGAGGGGATGTGATGAANACACGCATATTGGCTAGGAATGGGTCATTCGATCTTTTGCTCACTGGCATCTCNTTNGATTTTCNGGTATACGATGGTCAATTTGATCATCACCGTAACGGGAGGGTTAACGTTGTACAGTTTAATTTTATATTAACATAATTTGCAGTTAGTTGTGAAGCGAAGTGCGGGAGAATTTTATCCGCTGTCGGCAAAANTGTCGAGACTTTCAACCGAGTTTCGGTTACGAACTTTCAGTGTGTTTTTCAGAAAGGACGTTATCGAGTGTGACATTTTTCAAGTTCGTGACAATTGTAACATTTTAATCGAACTAGTACAAATTGCCCTTAAAATGGATCGCTTTATTATTAGAAGAAAAAAGAATGATGAAGTGAAAAATACAGAGGCATGTTCAAGTTCAACTGCTGGATCTGGAAGTGTAAATAGTGACAATATTGAGAAAAATGTTGACTCTAATCAGCAAACTTCGACTTCATTTGAGCCGCATTCTAAAAAGAAAAAAGTAAGTGCAAGACTTTATAATGAAGATTATTTAAAATATGGTTTTATCAAATGTGCAAAACCCANTGAAAATGACAGACCCCAATGTATTATTTGTAATGATATTCTTGCAAATGAAAGCTTAAAACCTTCAAAATTAAAAAGACACTTGGAAACACAGCATGCTGAACTTGTCGATAAGCCCCTCGAATATTTTCAAAGAAAGAAAAAAGACGTAAAGTTATCGGCACAATTTCTTAGTCGTTCTACGACTGTTAATGAGAAAGCCTTATTATCATCATATTTAGTTGCATATCGTGTGGCAAAAGAGAAAATGGCTCACACAGCTGCTGAAAAAATTATTCTTCCAGCATGTATGGATATGGTGCGTACGATTTTTGATGATAAATCAGCTGATAAATTAAAAACTATACCTCTTAGTGATAACACAGTATCTCGTCGAATCTNTACTATTGCAGAACATTTAGAAGCAATGCTTATTACGCGGTTACAGTCTGGTATAGATTTTGCGATCCAACTCGATGAGAGCACTGATATTGCAAGTTGCGCAACACTTTTAGTTTATGTCAGATATGCGTGGCAAGACGATTTTATGGAGGATTTGTTGTGTTGTTTAAATTTAACCTCACACACAACTGAATTAGACATATTTACAGAATTGGAAAAGCGCATTGTTGGTCAANATAAATTAAACTGGAAAAACTGTAAAGGAATNACGAGTGATGGAATAGCAAATATGACTGGAAAACACGGNAGAGNTATTAAAAAATTGTTAGAAGCTACTAATAACGGTGCTATTTGGAATCACTGTTTTATACATCGCGAAGCTTTGGCGTCCAAAGAAATTCTACCGAATCTCATGGATATATTGAAAAACGCAGCGAAAGTTGTTAATTTTATTAAAGGAAGCTCACTGAATAGCCGACTTTTTGAAATATTTTGTTCAGAGATTGGAGCTAACCATNCCCGCTTACTGTATCANACCGAAGTTCGTTGGTTGTCGCGAGGGAAAGTGCTAAGCAGGGTGTATGAACTCAGGAATGAGATTCACATTTTTCTAATTGAAAAGCAATCTCATTTGGCAAATATTTTCGAAGATGATATTTGAGTAANAAAATTGGCATATTTAACTGATATTTTCGGCATTCTTAACGAACTAAATTTGAAACTNCAGGGGAAAAACAACGATATATTTCAACATGTCGAACATATCCAAGGATTCCAAAAGACATTATTGTTATGGCAAGCAAGACTTAAAAGTAATCGCCCTAGCTACTATATGTTCCCAACATTGTTGCAACATATCGAAGAGAACATTATTAATGAAGACAGTTTGAANGAAATAAAATTAGAGATATTGTTGCATCTCACTTCTCTGTCTCAAACTTTTAATCATTACTTTCCAGAAGAGAAATTTGAAACATTAAAGAAAAATANTCGGATAAAAGATCCATTTGCTTTTCAAAACCCTGAATCAATAATTGAGTTAAACTTGGTGCCCGAAGAAGAGAATGAATTATTGCAGCTTAGTTCTTCATTTACACTGAAGAATGATTATAAGACATTAAGTNTATCATTATTTTGGATTAAGATTAAAGAAGAATTTCCATTGCTAAGTAGAAAGAGTGTATTGCTATTATTACCATTCACAACGACCNATTTGTNTGAACTAGGATTTTCAACCTTGACCCAATTAAAAACAAAGGAAAGAAACAGGCTCAACAGTGCACCAGATATGCGNGTAGCATTGTCCTCGTGTGTTCCGGACTGGAATGAACTTATGAACAGGCAAGCACACCCGTCGCATTAAATAAAATCTTTCCTAATTTTTGTTTTTGTATTGTTTATTTTGGANTATTTTTCTATGTTGTATTTAAATATTAATAAAATCATATTTGATATTAACTTTATGTTTTTACTTTTATCATACGTAGTAAGAGTAAGTATTGTTTCATGAAACTTTGTTTCAGTTGATATNTGTGCGTTATACGCGTATGTGTGTACTGGGTCGCGATGTAAAATGTATTTCTTACTGTGGGTCGCGGTCAAAAAAGTTTGAAAAACACTG
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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 |
|---|---|---|---|---|---|---|
| Charlie9 | HAT22 | 2195 | 2203 | + | 15.87 | CAATAATTG |
| Charlie9 | ATHB-53 | 2195 | 2203 | + | 15.87 | CAATAATTG |
| Charlie9 | DOF3.4 | 709 | 725 | - | 15.86 | CTTACTTTTTTCTTTTT |
| Charlie9 | bHLH80 | 1257 | 1265 | + | 15.85 | TGCAAGTTG |
| Charlie9 | IRF5 | 434 | 447 | - | 15.83 | TCGTAACCGAAACT |
| Charlie9 | RORA | 2405 | 2415 | - | 15.78 | TAATTGGGTCA |
| Charlie9 | CEBPB | 1262 | 1271 | + | 15.46 | GTTGCGCAAC |
| Charlie9 | CEBPB | 1262 | 1271 | - | 15.46 | GTTGCGCAAC |
| Charlie9 | DOF5.8 | 77 | 95 | - | 15.38 | CTATTTCATTTTACTTTTA |
| Charlie9 | SREBF1 | 1107 | 1116 | + | 15.24 | ATCAGCTGAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
