L1MC1_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000275 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Boreoeutheria |
| Length | 1080 |
| Kimura value | 17.00 |
| Tau index | 0.8561 |
| Description | 3' end of L1 retrotransposon, L1MC1_3end subfamily |
| Comment | ORF2 ends at bp ~675 |
| Sequence |
CTGTTATCCAAAATATACAAAGAACTCTTAAAACTCAACAATAAGAAAACGAACAACCCGATTNAAAAATGGGCCAAAGACCTNAACAGACACCTCACCAAAGAAGATATACAGATGGCAAATAAGCATATGAAAAGATGCTCCACATCATATGTCATCAGGGAAATGCAAATTAAAACAACAATGAGATACCACTACACACCTATTAGAATGGCCAAAATCCAGAACACTGACAACACCAAATGCTGGCGAGGATGTGGAGCAACAGGAACTCTCATTCATTGCTGGTGGGAATGCAAAATGGTACAGCCACTTTGGAAGACAGTTTGGCAGTTTCTTACAAAACTAAACATACTCTTACCATACGATCCAGCAATCGCGCTCCTTGGTATTTACCCAAAGGAGTTGAAAACTTATGTCCACACAAAAACCTGCACACGGATGTTTATAGCAGCTTTATTCATAATTGCCAAAACTTGGAAGCAACCAAGATGTCCTTCAGTAGGTGAATGGATAAATAAACTGTGGTACATCCAGACAATGGAATATTATTCAGCGCTAAAAAGAAATGAGCTATCAAGCCATGAAAAGACATGGAGGAAACTTAAATGCATATTACTAAGTGAAAGAAGCCAATCTGAAAAGGCTACATACTGTATGATTCCAACTATATGACATTCTGGAAAAGGCAAAACTATGGAGACAGTAAAAAGATCAGTGGTTGCCAGGGGTTGGGGGGGAGGGAGGGATGAATAGGCGGAGCACAGAGGATTTTTAGGGCAGTGAAACTACTCTGTATGATACTATAATGGTGGATACATGTCATTATACATTTGTCCAAACCCATAGAATGTACAACACCAAGAGTGAACCCTAATGTAAACTATGGACTTTGGGTGATAATGATGTGTCAATGTAGGTTCATCGATTGTAACAAATGTACCACTCTGGTGGGGGATGTTGATAGTGGGGGAGGCTGTGCATGTGTGGGGGCAGGGGGTATATGGGAAATCTCTGTACCTTCCGCTCAATTTTGCTGTGAACCTAAAACTGCTCTAAAAAATAAAGTCTATTTAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1MC1_3end | Rarb | 908 | 924 | + | -3.97 | GTGTCAATGTAGGTTCA |
| L1MC1_3end | EWSR1-FLI1 | 738 | 755 | + | -4.17 | GGGAGGGAGGGATGAATA |
| L1MC1_3end | EWSR1-FLI1 | 734 | 751 | + | -4.92 | GGGGGGGAGGGAGGGATG |
| L1MC1_3end | TRP1 | 422 | 442 | + | -5.50 | ACACAAAAACCTGCACACGGA |
| L1MC1_3end | Nr2F6 | 880 | 894 | - | -5.63 | AAAGTCCATAGTTTA |
| L1MC1_3end | EWSR1-FLI1 | 735 | 752 | + | -5.70 | GGGGGGAGGGAGGGATGA |
| L1MC1_3end | EWSR1-FLI1 | 739 | 756 | + | -10.74 | GGAGGGAGGGATGAATAG |
| L1MC1_3end | EWSR1-FLI1 | 730 | 747 | + | -15.42 | GGTTGGGGGGGAGGGAGG |
| L1MC1_3end | DAL81 | 428 | 446 | - | -39.42 | AACATCCGTGTGCAGGTTT |
| L1MC1_3end | BPC5 | 727 | 756 | + | -47.94 | AGGGGTTGGGGGGGAGGGAGGGATGAATAG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
