Charlie17a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000093 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 217 |
| Kimura value | 27.15 |
| Tau index | 0.9956 |
| Description | hAT-Charlie DNA transposon, Charlie17a subfamily (non-autonomous) |
| Comment | TSD: CTCTAGAG. |
| Sequence |
CAGAGCTTCCCAACCGGTGTGCCGCGAATGGGTTACAGGTGTGCCGAGATATTGATCCCCTCAGCCCTCGGGGCGGCCGGGCGGGGCCTGGGGCGGCCGGAGCCCCCGGGCCGGTCGCCTCCGGCCGCGAGCAGCCTCGTCCGTTTACCCCAGTGTGCCGTACAAATATTATCATTTTCTATGTGTGCCATGACGTGAAAAAGGTTGGGAAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie17a | TfAP-2 | 86 | 94 | + | 14.18 | GCCTGGGGC |
| Charlie17a | snai-1 | 35 | 41 | - | 14.14 | CACCTGT |
| Charlie17a | BAD1 | 80 | 91 | - | 14.14 | CCAGGCCCCGCC |
| Charlie17a | TFAP2E | 86 | 94 | - | 14.08 | GCCCCAGGC |
| Charlie17a | TFAP2E | 86 | 94 | + | 13.98 | GCCTGGGGC |
| Charlie17a | TFAP2B | 117 | 125 | + | 13.85 | GCCTCCGGC |
| Charlie17a | ZBED4 | 76 | 85 | - | 13.82 | CCCGCCCGGC |
| Charlie17a | TFAP2C | 101 | 111 | - | 13.80 | GCCCGGGGGCT |
| Charlie17a | atf-7 | 190 | 198 | + | 13.72 | ATGACGTGA |
| Charlie17a | TFAP2B | 117 | 125 | - | 13.69 | GCCGGAGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
