Helitron3Na_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000160 |
|---|---|
| TE superfamily | Helitron-1 |
| TE order | 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 | PLAG1 | 151 | 164 | + | 22.37 | GGGGCCCTGGGGGG |
| Helitron3Na_Mam | TB1 | 149 | 157 | - | 17.38 | GGGCCCCCC |
| Helitron3Na_Mam | PLAGL2 | 150 | 157 | - | 15.67 | GGGCCCCC |
| Helitron3Na_Mam | PK19717.1 | 149 | 157 | - | 15.24 | GGGCCCCCC |
| Helitron3Na_Mam | NHP10 | 469 | 476 | + | 15.18 | GCCGGGGA |
| Helitron3Na_Mam | FOXD3 | 280 | 293 | + | 15.08 | AGAGAAAACAAACA |
| Helitron3Na_Mam | MYB80 | 72 | 83 | + | 14.64 | TTCACCAAATTT |
| Helitron3Na_Mam | FOXD2 | 431 | 441 | - | 14.59 | TTAAATAAATA |
| Helitron3Na_Mam | TFAP2A | 154 | 164 | - | 14.56 | CCCCCCAGGGC |
| Helitron3Na_Mam | MYB39 | 72 | 83 | + | 14.56 | TTCACCAAATTT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
