L2d_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001215 |
|---|---|
| TE superfamily | L2 |
| TE order | LINE |
| Species | Eutheria |
| Length | 516 |
| Kimura value | 36.41 |
| Tau index | 0.8395 |
| Description | 3' end of L2 (LINE2) retrotransposon, L2d_3end subfamily |
| Comment | Copies at orthologous sites in all eutheria. |
| Sequence |
CTCCACGATCTGGCCCCACCCTACCTNTCCAGCCTTATCTCCCACTACTCCCCAGCACGAACCCTCCGCTCCAGTCAGGCCGGTCTCTTCACTGTCCCCCGAACACGCCTTGCGCATTCCCGCCTCTGCGCCTTTGCTCACGCCGTTCCCCCCGCCTGGAATGCCCTTCCCCTTCCTCTCTCTCTATCCAAATCCTACCCATCCTTCAAGGCCCAGCTCAAGTCCCACCTCCTCCACGAAGCCTTCCCTGACCACTCCAGCCCACACTGATCTCTCCCTTCTCTGAACTCCTATAGCACTTATAGTCTGTACCACGCAATTTAGCACTTAATTATATACTGTCTTGTATTGTTCTCTAATTGTTTCATGTGTGTTAGTCTTGTCTCCCCAACTAGATTGTAAGCTCCTTGAGGGCAGGGACCATGTCTTATACTNTTTTNTCGTTCCCCACAGCGCCTAGCACAGTGCTGAGCACATAGTAGGCGCTCAATAAATACTTGTTGATTGATTGATTGA
|
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 |
|---|---|---|---|---|---|---|
| L2d_3end | BPC5 | 162 | 191 | - | -42.52 | TTGGATAGAGAGAGAGGAAGGGGAAGGGCA |
| L2d_3end | BPC5 | 176 | 205 | - | -45.56 | AGGATGGGTAGGATTTGGATAGAGAGAGAG |
| L2d_3end | BPC5 | 158 | 187 | - | -46.83 | ATAGAGAGAGAGGAAGGGGAAGGGCATTCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
