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 | BPC1 | 328 | 351 | - | 0.39 | GATTCATTGGGCCAGAGAGAGAGA |
| Chompy-6_Croc | BPC1 | 86 | 109 | + | 0.09 | TTGGGCCAGAGAGAGGGAGCAAGA |
| Chompy-6_Croc | BPC6 | 88 | 108 | - | -0.18 | CTTGCTCCCTCTCTCTGGCCC |
| Chompy-6_Croc | BPC5 | 321 | 350 | - | -36.01 | ATTCATTGGGCCAGAGAGAGAGAGCAAGAG |
| Chompy-6_Croc | BPC5 | 323 | 352 | - | -37.78 | AGATTCATTGGGCCAGAGAGAGAGAGCAAG |
| Chompy-6_Croc | BPC5 | 81 | 110 | + | -42.35 | ATTCATTGGGCCAGAGAGAGGGAGCAAGAG |
| Chompy-6_Croc | BPC5 | 325 | 354 | - | -45.24 | CAAGATTCATTGGGCCAGAGAGAGAGAGCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
