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 | NAC69 | 339 | 346 | - | 14.59 | ACAAGGCA |
| L2d2_3end | TSO1 | 379 | 393 | - | 14.53 | AATACAAGATTTAAA |
| L2d2_3end | MAC1 | 133 | 140 | + | 14.47 | TTTGCTCA |
| L2d2_3end | TCP5 | 459 | 466 | + | 14.30 | GGGACCAT |
| L2d2_3end | FoxB | 531 | 541 | + | 14.26 | ATAAATATTTG |
| L2d2_3end | Spi1 | 169 | 181 | - | 14.24 | GGAGAGGAAGGGG |
| L2d2_3end | GATA4 | 33 | 40 | + | 14.20 | CCTTATCT |
| L2d2_3end | ARF36 | 419 | 430 | - | 14.18 | GGGAGACAAGAC |
| L2d2_3end | DOF5.1 | 390 | 408 | - | 14.09 | GAAAAGTTAAATAACAATA |
| L2d2_3end | ZKSCAN1 | 517 | 525 | + | 14.05 | ACAGTAGGC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
