L2d2_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001144 |
|---|---|
| TE superfamily | L2 |
| TE class | LINE |
| Species | Eutheria |
| Length | 555 |
| Kimura value | 35.72 |
| Tau index | 0.8653 |
| Description | 3' end of L2 (LINE2) retrotransposon, L2d2_3end subfamily |
| Comment | Present at orthologous sites in all eutheria, absent from marsupials. |
| Sequence |
CTCCACGATCTGGCCCCAACCTNCCTTTCCAGCCTTATCTCCCACTATTCCCCTNCACGAACCCTCCGCTCCAGCCAAACTGGTCTACTCACTGTCCCCCGAACACGCCTTGCGCNTTCCCGCCTCTGCGCCTTTGCTCACGCCGTTCCCCCCGCCTGGAATGCCCTTCCCCTTCCTCTCCACCTATCCAAATCCTACCCATCCTTCAAGGCCCAGCTCAAATNCCACCTCCTCCGTGAAGCCTTCCCTGACCACTCCAGCCCGNAGTGATCTCTCCCTCCTCTGAACTCCTATAGCANTTATTGTCTGTACCATTCATTTGGCAATTAATCATGTACTGCCTTGTGACATCTCTTCTATTGTTGTCTTGAACTGTTATTTAAATCTTGTATTGTTATTTAACTTTTCACGTGTTTATGTCTTGTCTCCCCAACTAGATTGTAAGCTCCTTGAGGGCAGGGACCATGTCTTATACTTCTTTGTATCCCCCACAGCGCCTAGCACAGTGCCTTGCACACAGTAGGCGCTCAATAAATATTTGTTGATTTGATTTGA
|
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 |
|---|---|---|---|---|---|---|
| L2d2_3end | SOL1 | 378 | 392 | - | 15.70 | ATACAAGATTTAAAT |
| L2d2_3end | ROX1 | 356 | 367 | + | 15.52 | TCTATTGTTGTC |
| L2d2_3end | TCX6 | 378 | 392 | + | 15.46 | ATTTAAATCTTGTAT |
| L2d2_3end | ZNF530 | 162 | 175 | - | 15.40 | GAAGGGGAAGGGCA |
| L2d2_3end | E2F6 | 117 | 124 | - | 15.29 | GGCGGGAA |
| L2d2_3end | Plagl1 | 11 | 18 | - | 15.15 | TGGGGCCA |
| L2d2_3end | lmd | 483 | 494 | + | 14.95 | TATCCCCCACAG |
| L2d2_3end | PATZ1 | 149 | 159 | - | 14.89 | CCAGGCGGGGG |
| L2d2_3end | D | 356 | 366 | + | 14.77 | TCTATTGTTGT |
| L2d2_3end | TFDP1 | 117 | 124 | - | 14.70 | GGCGGGAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
