DNA1_Mam
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000113 |
|---|---|
| TE superfamily | Tc1 |
| TE class | DNA |
| Species | Eutheria |
| Length | 407 |
| Kimura value | 22.80 |
| Tau index | 0.0000 |
| Description | TcMar DNA transposon, DNA1_Mam subfamily (non-autonomous) |
| Comment | Present in ~200 copies in human and other placental mammals. It has imperfect TIRs and putative TSDs (TA, included in consensus). The sequence is a near perfect hairpin. |
| Sequence |
CAGGGTGTCCGAAAAGTCGGGAAACATAGGATAAACTTATTTTTAAACAGTATGTTAGTTACATTTTCAAATAATATGCTCAATATGTTTTTCTTCAACCTCCAGACACCTTTTCAGGTGAAGTACCTCTAAATTTAAAGCAATGGGTCCAATTGTTAATCTGAAAAAAGTACAATAAATACACTATTTTCCCTGTGTTTCCAGACTTTTTGGACACTCTGTAGTGTATTTATTGTACTTTTTTCAGATTAACAATTGGACCCATTGCTTTAAATTTAGAGGTACTTCACCTGAAAAGGTGTCTGGAGGTTGAAGAAAAACATATTGAGCATATTATTTGAAAATGTAACTAACATACTGTTTAAAAATAAGTTTATCCTATGTTTCCCGACTTTTCGGACACCCTG
|
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 |
|---|---|---|---|---|---|---|
| DNA1_Mam | FoxO | 318 | 326 | - | 12.14 | AATATGTTT |
| DNA1_Mam | FoxO | 82 | 90 | + | 12.14 | AATATGTTT |
| DNA1_Mam | mef-2 | 184 | 190 | - | 12.10 | AAAATAG |
| DNA1_Mam | PGR | 353 | 361 | - | 11.94 | ACAGTATGT |
| DNA1_Mam | PGR | 353 | 361 | + | 11.94 | ACATACTGT |
| DNA1_Mam | PGR | 47 | 55 | + | 11.94 | ACAGTATGT |
| DNA1_Mam | PGR | 47 | 55 | - | 11.94 | ACATACTGT |
| DNA1_Mam | DOF5.4 | 165 | 171 | + | 11.91 | AAAAAGT |
| DNA1_Mam | DOF5.4 | 205 | 211 | - | 11.91 | AAAAAGT |
| DNA1_Mam | DOF5.4 | 237 | 243 | - | 11.91 | AAAAAGT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
