Chompy-6_Croc
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001323 |
|---|---|
| TE superfamily | Harbinger |
| TE class | DNA |
| Species | Amniota |
| Length | 980 |
| Kimura value | 28.75 |
| Tau index | 0.0000 |
| Description | Chompy-6 DNA transposon, PIF-Harbinger subfamily |
| Comment | - |
| Sequence |
CGCTATAGGCTATTCTGGGGTGGGGGGCGCTCTCCACCCCTCCTGTTGAAGCTGTNCCACTNTGCANAAAAGAATTNAAGATTCATTGGGCCAGAGAGAGGGAGCAAGAGNGAGCATGACTCTGTAGCCTAGTGGTTAGGGCACTCACCTGGGAGGGGGGAGNCCTGGGTTCCGGTCCCTGCTCCAAGGACTGTTTATGTATTTTATCCAATGACCGTTTAATGTAAAATACATAAACAGTCCTTGGAGCAGGGACCGGAACCCAGGNCTCCCCCCTCCCAGGTGAGTGCCCTAACCACTAGGCTACAGAGTCATGCTCNCTCTTGCTCTCTCTCTCTGGCCCAATGAATCTTGAATTCTTTTCTGCANAGTGGNACAGCTTCAACAGGAGGGGTGGAGAGTGCCCCCACCCCAGAATAGCCTATAGCCTGGTGGTTAGGGCACTCTCCTGGGAGGTGGGAGATGTGGGTTTGAATCCCCTCAGGCNGAGGAGGGAATTGAACCCGGGTCTCCCACNTCCTGGGCGAGTGCTCTAACCACTAGGCTATTGNATAAAAGGGGGGCGGCACCACCACCTCCTCCGGCCGCGTTTTAAAAGAAAAGAGTGANCCCTGCTCCGTTTTTGAAAGAAAGGGCTTAGGCGCCTANCTCCAGGAGAGGGTTCCGGGCTGTGAATCCCGAGTGGACGGAGGCGCCTCCCTGCAGCCCTGAGTNAGGCGCCTAAGCCCCGGAGAGGGGCGGGATTTAAGACACACCCCTGTCCTCAGCGTTTCCTATTGGCTAGCTTAGGCGGCTCCCCGCTCAGCGTGCTGGCTNTTGTGGATCCCATTCTGAGGCGCCTAACTCTCCCCATGCACTGTATAGGGAGCCTAGGCGCCTAACTCAGGGCTNTGGATTCCACTCCGGGGGCCAGGCGCCTAAAAGTTAGGCGCTGCAACGCTCAGCGTTGCGGCGCCTAAGTCCCTTTGTGGATCTAGCCC
|
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 |
|---|---|---|---|---|---|---|
| Chompy-6_Croc | DREB2G | 569 | 582 | - | 18.12 | GGAGGAGGTGGTGG |
| Chompy-6_Croc | RAMOSA1 | 324 | 337 | - | 17.73 | GAGAGAGAGAGCAA |
| Chompy-6_Croc | RAMOSA1 | 326 | 339 | - | 17.63 | CAGAGAGAGAGAGC |
| Chompy-6_Croc | RAMOSA1 | 328 | 341 | - | 17.41 | GCCAGAGAGAGAGA |
| Chompy-6_Croc | ZNF684 | 389 | 402 | - | 16.34 | ACTCTCCACCCCTC |
| Chompy-6_Croc | MAZ | 151 | 158 | - | 16.08 | CCCCTCCC |
| Chompy-6_Croc | MAZ | 273 | 280 | + | 16.08 | CCCCTCCC |
| Chompy-6_Croc | SP2 | 735 | 743 | + | 15.71 | GGGGCGGGA |
| Chompy-6_Croc | MYB116 | 922 | 931 | - | 15.62 | CGCCTAACTT |
| Chompy-6_Croc | KLF4 | 18 | 25 | - | 15.48 | CCCCACCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
