Helitron3Na_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000160 |
|---|---|
| TE superfamily | Helitron-1 |
| TE class | RC |
| Species | Eutheria |
| Length | 486 |
| Kimura value | 31.32 |
| Tau index | 0.8210 |
| Description | Helitron DNA transposon, Helitron3Na_Mam subfamily |
| Comment | Helitrons are thought to transpose with a rolling circle mechanism, and represent a distinct class of DNA transposon. Helitron3Na_Mam represents a non-autonomous helitron fossil also found in other mammals, though it is not clearly similar to the other human helitron models. |
| Sequence |
TCTATATAAATAAAATTAAGTTTCTGTCTGTTTGTCTGTTACCGCATCACGCGAAAATGGCTGGATGGATTTTCACCAAATTTGGAGGGTATGTTTGGGATGGTCTGACTTAAAATATAGGCTATGTGGCATACACGAAATTCACTTTGGGGGGCCCTGGGGGGCACCTCAAAGAGATAGGCAGTCATCCTCCAGAGCAGCTGAAACTGAGGTACAACGAGAGGCCCGTGTGACTGCCGATCGGGAGAGACATGCCATACGTATTAAGACGCCGTGGACAGAGAAAACAAACAGTGGTTTCAAATATGAGCCCCAAATCGAAAGTCACAAGGGCAGACGCTCCGAATTGCAGGCGTTGATTTGCGATCGAGCTGCTTCTCACATGGGCAACTCTATGTAGCGTGCTCCAGGGTGAGTAGCAGCAGGGATTTATTTATTTAACGATGGTTAATGATTCTCCCGAGCAACGCCGGGGAGGCCAGCTAG
|
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 |
|---|---|---|---|---|---|---|
| Helitron3Na_Mam | MYB43 | 72 | 83 | + | 14.51 | TTCACCAAATTT |
| Helitron3Na_Mam | ARF36 | 159 | 170 | + | 14.39 | GGGGGGCACCTC |
| Helitron3Na_Mam | SWI4 | 49 | 56 | + | 14.33 | ACGCGAAA |
| Helitron3Na_Mam | ZBTB24 | 152 | 161 | - | 14.31 | CCCAGGGCCC |
| Helitron3Na_Mam | TB1 | 148 | 156 | - | 14.18 | GGCCCCCCA |
| Helitron3Na_Mam | Zic1::Zic2 | 420 | 426 | + | 13.93 | CAGCAGG |
| Helitron3Na_Mam | PROX1 | 265 | 276 | + | 13.89 | TAAGACGCCGTG |
| Helitron3Na_Mam | TFAP2A | 153 | 165 | + | 13.72 | GGCCCTGGGGGGC |
| Helitron3Na_Mam | lmd | 155 | 166 | - | 13.70 | TGCCCCCCAGGG |
| Helitron3Na_Mam | Zic3 | 420 | 426 | + | 13.70 | CAGCAGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
