Charlie10b
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000083 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 242 |
| Kimura value | 22.60 |
| Tau index | 0.0000 |
| Description | hAT-Charlie DNA transposon, Charlie10b subfamily (non-autonomous) |
| Comment | - |
| Sequence |
CAGTGCTACTCAAAGTGCCGGTCCGCGACGAGATAAGGAGCTTGCGCCAGAATGTAAATCAACGCACTGCTTCCTTCATCGAGAAAGTCTTGCTACGAAAAAAATGTCAGCTGAACTAAACAGTGTGCTTAGTGACGTAGTTGATTTACATTCTGGCGCAAGCTCCTTATCTCGTCGCGGACCGGTAACAAACAGTTCGCGGACCGGCAGCCGGTCCGCGGACCACACTTTGAGTAGCACTG
|
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 |
|---|---|---|---|---|---|---|
| Charlie10b | ZNF454 | 208 | 224 | - | 13.65 | GGTCCGCGGACCGGCTG |
| Charlie10b | PRDM1 | 81 | 87 | - | 13.28 | CTTTCTC |
| Charlie10b | srp | 165 | 172 | - | 13.11 | AGATAAGG |
| Charlie10b | srp | 31 | 38 | + | 13.11 | AGATAAGG |
| Charlie10b | bZIP14 | 132 | 139 | + | 13.09 | GTGACGTA |
| Charlie10b | Atf1 | 132 | 139 | + | 13.08 | GTGACGTA |
| Charlie10b | GATA2 | 166 | 172 | + | 12.60 | CTTATCT |
| Charlie10b | GATA2 | 31 | 37 | - | 12.60 | CTTATCT |
| Charlie10b | YPR015C | 141 | 151 | - | 12.59 | ATGTAAATCAA |
| Charlie10b | YPR015C | 52 | 62 | + | 12.59 | ATGTAAATCAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
