Eutr11
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001164 |
|---|---|
| TE superfamily | Transposase |
| TE class | DNA |
| Species | Eutheria |
| Length | 857 |
| Kimura value | 27.38 |
| Tau index | 0.0000 |
| Description | Ancient interspersed repetitive sequence from eutherian mammals. |
| Comment | 24 bp TIRs, so likely a DNA transposon, but no obvious TSDs and TIRs do not match other DNA transposon ends yet. The element carries about 2.5 tandem copies of a 146 bp unit from pos 250-618. Present at orthologous sites in elephants and humans, absent in opossum. |
| Sequence |
CAGGACGTTTTGACCCCGCCGTTTTGACCCCGAGGACGTTTTGACTCCGTGTTTATGAATACAAACATTTTAATCAGAATTATACCAACATTGATGAATTTTCGTCGAGAAAGTATTTTCCGGAGCGAACTCCATTAAGCCAATTTAATTCCTTGATCAATTTTCTATACAGCGCAGTTAAACCATTTCCANTTTTTCCCATTTTTATTTTATTTTACTGAAATTATTTTCATTTGATTCATTGATCTCATTTTTTGTCCATATCAAATTTTACCGATTATAGCTTCTGCCATTGTGAGTTTTCTTTTGTGGCCATTATTTCTACCAAGTCCAATTTTCCCGGGTCAAATTTTGCAGATCTAAATTTTGTCAAGAAGATTTGATTCTTCCGTCAATTTTTAGTCAATAACAAATTTTACCGTGTGCAGTTTTAGCCGTTGTCAGTTTTATTTTGTGTTGATTATTTCTACCAAGTCTAATTTTTCCCGGGTCAATTTTTGCAGTTTTCAATNTTACCAACAAGATGTGATTCTTCAGTCAGTTTTTCGTCTATAACAAATTTTACCGTGTGCAGTTTTAGCCATTGTCAGTTTTATTTTGTGTTGATTATTTCTACCAGTAATATTCATTATGAATTGGATAAAAGACTGATAGTTTGTATTTATTTCTTAGCTAATCCATGAGAAAATTGTGAGCAATTCCCCTCAGATATTCCAGGATTGCTCTATTGTCCAGGATTGGTCTATTGTATTGCTAATCCAATTCTTCCGTATACTTCTGATCACTTTGCGTACTGCGTACTAACTGTCCGCGCCGTTGGCGGAGCAAAGAGCAAACGGCGGGGTCAAAATGTTCTG
|
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 |
|---|---|---|---|---|---|---|
| Eutr11 | AT5G61620 | 634 | 647 | + | 13.00 | AATTGGATAAAAGA |
| Eutr11 | AT5G47660 | 269 | 275 | - | 13.00 | GGTAAAA |
| Eutr11 | AT5G47660 | 414 | 420 | - | 13.00 | GGTAAAA |
| Eutr11 | AT5G47660 | 560 | 566 | - | 13.00 | GGTAAAA |
| Eutr11 | SOC1 | 196 | 208 | + | 12.95 | TTCCCATTTTTAT |
| Eutr11 | Pou5f1::Sox2 | 744 | 758 | + | 12.94 | TATTGTATTGCTAAT |
| Eutr11 | foxo | 50 | 58 | - | 12.94 | TCATAAACA |
| Eutr11 | NDT80 | 450 | 458 | - | 12.93 | AACACAAAA |
| Eutr11 | NDT80 | 596 | 604 | - | 12.93 | AACACAAAA |
| Eutr11 | rib | 494 | 502 | - | 12.90 | TGCAAAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
