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 | ZNF135 | 302 | 315 | - | 12.37 | CTTCAACCTCCAGA |
| DNA1_Mam | ZNF135 | 93 | 106 | + | 12.37 | CTTCAACCTCCAGA |
| DNA1_Mam | DOF3.4 | 165 | 181 | - | 12.36 | TATTTATTGTACTTTTT |
| DNA1_Mam | DOF3.4 | 227 | 243 | + | 12.36 | TATTTATTGTACTTTTT |
| DNA1_Mam | DOF1.7 | 165 | 175 | + | 12.33 | AAAAAGTACAA |
| DNA1_Mam | DOF1.7 | 233 | 243 | - | 12.33 | AAAAAGTACAA |
| DNA1_Mam | DOF1.6 | 165 | 172 | + | 12.32 | AAAAAGTA |
| DNA1_Mam | DOF1.6 | 236 | 243 | - | 12.32 | AAAAAGTA |
| DNA1_Mam | TCX3 | 334 | 345 | - | 12.31 | ATTTTCAAATAA |
| DNA1_Mam | TCX3 | 63 | 74 | + | 12.31 | ATTTTCAAATAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
