L2c_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000361 |
|---|---|
| TE superfamily | L2 |
| TE class | LINE |
| Species | Mammalia |
| Length | 478 |
| Kimura value | 36.01 |
| Tau index | 0.8694 |
| Description | 3' end of L2 (LINE2) retrotransposon, L2c_3end subfamily |
| Comment | L2 3' region. Starts at 2910 of L2 consensus with ~170 bp overlap. |
| Sequence |
CTNCACGATCTGGCCCCTGCCTACCTCTCCAGCCTCATCTCCTCCACTCCCCTCCTCGCCCACTATGCTCCAGCCACACTGAACTNCTTGCATTCCCCAAACACGCCGCAGTTCTTTCCTGCCTCCGNGCCTTTGCACATGCTGTTCCCTCTGCCTGGAATGCTCTTCCCCCCTCCTTCCACCTGGCTAACTCCTACTCATCCTTCAAGNCTCAGCTCAGATGTCACCTCCTCCGGGAAGCCTTCCCTGACCCCCCAAGNCTAGTCTAGGTGCCCTCCTCTGTGCTCCCATAGCACCCTGTCTATACTCCCATTATAGCACTTATCATTAACTTGTATTGTAATTGTCTGTTTACNTGTCTGTCTCCTCCACTAGACTGTGAGCTCCTTGAGGGCAGGGACCGTGTCTTATTCATCTTTGTATCCCCAGCGCCTGGCACATAGTAGGCGCTCAATAAATGTTTGTTGAATGAATGAAT
|
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 |
|---|---|---|---|---|---|---|
| L2c_3end | EWSR1-FLI1 | 25 | 42 | - | -16.12 | GGAGATGAGGCTGGAGAG |
| L2c_3end | BPC5 | 39 | 68 | - | -38.60 | GCATAGTGGGCGAGGAGGGGAGTGGAGGAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
