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 | KLF4 | 405 | 412 | + | 15.48 | CCCCACCC |
| Chompy-6_Croc | ZIPIC | 702 | 711 | + | 15.35 | GCAGCCCTGA |
| Chompy-6_Croc | STP2 | 948 | 956 | - | 15.21 | GGCGCCGCA |
| Chompy-6_Croc | KLF10 | 17 | 25 | + | 15.20 | GGGGTGGGG |
| Chompy-6_Croc | KLF10 | 405 | 413 | - | 15.20 | GGGGTGGGG |
| Chompy-6_Croc | SP1 | 735 | 743 | + | 15.14 | GGGGCGGGA |
| Chompy-6_Croc | KLF14 | 735 | 743 | + | 15.08 | GGGGCGGGA |
| Chompy-6_Croc | ZNF682 | 719 | 729 | + | 15.06 | GCCTAAGCCCC |
| Chompy-6_Croc | TFAP2A | 478 | 486 | + | 14.96 | CCCTCAGGC |
| Chompy-6_Croc | RAMOSA1 | 90 | 103 | + | 14.90 | GCCAGAGAGAGGGA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
