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 | INSM1 | 723 | 734 | + | 15.83 | TGCCAGGGGTTG |
| L1MC1_3end | ZNF320 | 987 | 1006 | + | 15.72 | GTGGGGGCAGGGGGTATATG |
| L1MC1_3end | Klf15 | 730 | 751 | - | 15.68 | CATCCCTCCCTCCCCCCCAACC |
| L1MC1_3end | ZNF281 | 736 | 745 | + | 15.49 | GGGGGAGGGA |
| L1MC1_3end | ZNF281 | 989 | 998 | + | 15.43 | GGGGGCAGGG |
| L1MC1_3end | FOXO1::ELK1 | 261 | 273 | + | 15.19 | AGCAACAGGAACT |
| L1MC1_3end | Klf15 | 727 | 748 | - | 15.03 | CCCTCCCTCCCCCCCAACCCCT |
| L1MC1_3end | ZFP14 | 259 | 273 | + | 14.85 | GGAGCAACAGGAACT |
| L1MC1_3end | Klf6-7-like | 728 | 747 | - | 14.79 | CCTCCCTCCCCCCCAACCCC |
| L1MC1_3end | Neurod2 | 111 | 118 | + | 14.69 | ACAGATGG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
