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 | IKZF1 | 264 | 271 | + | 14.34 | AACAGGAA |
| L1MC1_3end | HSFA6B | 678 | 685 | + | 14.34 | TTCTGGAA |
| L1MC1_3end | hsf-1 | 678 | 685 | - | 14.34 | TTCCAGAA |
| L1MC1_3end | HSFC1 | 678 | 685 | - | 14.24 | TTCCAGAA |
| L1MC1_3end | DOF4.2 | 683 | 693 | + | 14.18 | GAAAAGGCAAA |
| L1MC1_3end | PRDM9 | 730 | 749 | + | 14.12 | GGTTGGGGGGGAGGGAGGGA |
| L1MC1_3end | NAC045 | 480 | 487 | + | 14.10 | GAAGCAAC |
| L1MC1_3end | unc-86 | 609 | 616 | - | 14.03 | ATATGCAT |
| L1MC1_3end | Rfx6 | 721 | 729 | - | 14.02 | CCTGGCAAC |
| L1MC1_3end | AT1G74840 | 4 | 12 | - | 14.00 | TTTGGATAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
