Chompy-6_Croc
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001323 |
|---|---|
| TE superfamily | Harbinger |
| TE order | 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 | TFAP2C | 478 | 486 | - | 14.46 | GCCTGAGGG |
| Chompy-6_Croc | MYB44 | 212 | 220 | - | 14.41 | AAACGGTCA |
| Chompy-6_Croc | TFAP2A | 476 | 486 | + | 14.38 | TCCCCTCAGGC |
| Chompy-6_Croc | ZBED4 | 733 | 742 | - | 14.36 | CCCGCCCCTC |
| Chompy-6_Croc | ERF9 | 567 | 585 | - | 14.35 | GCCGGAGGAGGTGGTGGTG |
| Chompy-6_Croc | btd | 734 | 742 | + | 14.34 | AGGGGCGGG |
| Chompy-6_Croc | MYB62 | 922 | 930 | + | 14.33 | AAGTTAGGC |
| Chompy-6_Croc | KLF15 | 736 | 743 | - | 14.13 | TCCCGCCC |
| Chompy-6_Croc | CDC5 | 800 | 808 | + | 14.13 | GCTCAGCGT |
| Chompy-6_Croc | CDC5 | 939 | 947 | + | 14.13 | GCTCAGCGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
