L2a_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000359 |
|---|---|
| TE superfamily | L2 |
| TE class | LINE |
| Species | Theria_mammals |
| Length | 517 |
| Kimura value | 32.66 |
| Tau index | 0.7342 |
| Description | 3' end of L2 (LINE2) retrotransposon, L2a_3end subfamily |
| Comment | L2 3' region. Starts at 2910 of L2 consensus with ~170 bp overlap. MIR and MIRb share 3' terminal end homology over ~50bp. |
| Sequence |
CTACATGATCTGGCCCCCCGTTACCTCTCTGACCTCATCTCCTACCACTCTCCCCCTCGCTCACTCCGCTCCAGCCACACTGGCCTCCTTGCTGTTCCTCGAACACGCCAGGCACGCTCCCGCCTCAGGGCCTTTGCACTTGCTGTTCCCTCTGCCTGGAACGCTCTTCCCCCAGATATCCGCATGGCTCGCTCCCTCACCTCCTTCAGGTCTTTGCTCAAATGTCACCTTCTCAGNGAGGCCTTCCCTGACCACCCTATTTAAAATNGCACACCCTCNCCCCCANCACTCCCTATCCCCCTTACCCTGCTTTATTTTTCTCCATAGCACTTATCACCATCTGACATACTATATATTTTACTTATTTATTTGTTTATTGTCTGTCTCCCCCCACTAGAATGTAAGCTCCATGAGGGCAGGGACTTTTGTCTGTTTTGTTCACTGCTGTATCCCCAGCGCCTAGAACAGTGCCTGGCACATAGTAGGCGCTCAATAAATATTTGTTGAATGAATGAAT
|
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 |
|---|---|---|---|---|---|---|
| L2a_3end | Fer2 | 337 | 346 | + | 14.41 | CCATCTGACA |
| L2a_3end | ZNF257 | 117 | 126 | - | 14.34 | GAGGCGGGAG |
| L2a_3end | ZKSCAN1 | 479 | 487 | + | 14.33 | ATAGTAGGC |
| L2a_3end | ZNF701 | 13 | 29 | - | 14.28 | GAGAGGTAACGGGGGGC |
| L2a_3end | FoxB | 493 | 503 | + | 14.26 | ATAAATATTTG |
| L2a_3end | ZNF257 | 194 | 203 | - | 14.16 | GAGGTGAGGG |
| L2a_3end | TFAP2B | 121 | 131 | - | 14.15 | GCCCTGAGGCG |
| L2a_3end | IDD11 | 424 | 435 | - | 14.05 | AAACAGACAAAA |
| L2a_3end | let-381 | 370 | 377 | - | 13.99 | ATAAACAA |
| L2a_3end | JUND | 29 | 39 | - | 13.94 | GATGAGGTCAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
