L1MC1_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000275 |
|---|---|
| TE superfamily | L1 |
| TE order | 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
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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 | POU3F2 | 164 | 175 | + | 14.58 | AAATGCAAATTA |
| L1MC1_3end | NEUROD1 | 111 | 118 | + | 14.58 | ACAGATGG |
| L1MC1_3end | NR2C2 | 989 | 1002 | + | 14.53 | GGGGGCAGGGGGTA |
| L1MC1_3end | AT1G74840 | 509 | 517 | + | 14.47 | AATGGATAA |
| L1MC1_3end | TBF1 | 870 | 877 | + | 14.43 | AACCCTAA |
| L1MC1_3end | Yy1 | 297 | 304 | + | 14.43 | CAAAATGG |
| L1MC1_3end | Hsf | 678 | 685 | - | 14.43 | TTCCAGAA |
| L1MC1_3end | PATZ1 | 736 | 746 | + | 14.42 | GGGGGAGGGAG |
| L1MC1_3end | AZF1 | 561 | 569 | + | 14.41 | AAAAAGAAA |
| L1MC1_3end | lin-54 | 162 | 174 | + | 14.38 | GGAAATGCAAATT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
