Helitron2Na_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000159 |
|---|---|
| TE superfamily | Helitron-1 |
| TE class | RC |
| Species | Theria_mammals |
| Length | 324 |
| Kimura value | 33.87 |
| Tau index | 1.0000 |
| Description | Helitron DNA transposon, Helitron2Na_Mam subfamily |
| Comment | Helitrons are thought to transpose with a rolling circle mechanism, and represent a distinct class of DNA transposon. While named a helitron, this 324bp TE model its classification is tentative. There is suggestive similarity to a non-autonomous helitron in the sea urchin S. purpuratus. |
| Sequence |
TTGACCGAACGAAGTGAGGTCTCTGTTTCAACTCGACCGCTTGGCATTTTGCATTTGTCTGTCTGTTTGTTCCATGATAACTTTCGAAGGAGTTGACTGATTTTGACCAAATTTGGTACACTACTAAAGGGTATCAAGATACACCTTAAGTTCGATTTGTGGTTCAGTCTGCCATCTTGAAACAAAATGGCAGCCGATAAAAGTTTTCAAATGGGCATATCTTCTGTAATTTTTAATAGATTTCAATGAAATTTGGTACGTGGGTAGAGGTTACAGAGATATGTGATTGCACTGAGTGAAGTCTGCAGTTCACAGAACCACTAG
|
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 |
|---|---|---|---|---|---|---|
| Helitron2Na_Mam | Six3 | 126 | 136 | + | 17.00 | AAAGGGTATCA |
| Helitron2Na_Mam | ZFP42 | 183 | 195 | + | 16.83 | CAAAATGGCAGCC |
| Helitron2Na_Mam | D19B | 125 | 136 | - | 16.64 | TGATACCCTTTA |
| Helitron2Na_Mam | REF6 | 21 | 29 | - | 15.41 | GAAACAGAG |
| Helitron2Na_Mam | Yy1 | 183 | 190 | + | 14.43 | CAAAATGG |
| Helitron2Na_Mam | EIL4 | 242 | 250 | + | 14.36 | TTCAATGAA |
| Helitron2Na_Mam | AGL1 | 104 | 119 | - | 14.34 | GTACCAAATTTGGTCA |
| Helitron2Na_Mam | AGL1 | 104 | 119 | + | 14.06 | TGACCAAATTTGGTAC |
| Helitron2Na_Mam | HAP1 | 194 | 201 | + | 13.84 | CCGATAAA |
| Helitron2Na_Mam | WRKY1 | 1 | 10 | + | 13.56 | TTGACCGAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
