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 | ZNF8 | 520 | 539 | - | 28.40 | GTCTGGATGTACCACAGTTT |
| L1MC1_3end | PRDM9 | 734 | 753 | + | 20.50 | GGGGGGGAGGGAGGGATGAA |
| L1MC1_3end | Wt1 | 967 | 976 | - | 18.54 | CCTCCCCCAC |
| L1MC1_3end | PRDM9 | 727 | 746 | + | 18.21 | AGGGGTTGGGGGGGAGGGAG |
| L1MC1_3end | Klf15 | 728 | 749 | - | 18.06 | TCCCTCCCTCCCCCCCAACCCC |
| L1MC1_3end | MGA::EVX1 | 895 | 905 | + | 17.04 | GGGTGATAATG |
| L1MC1_3end | HNF4A | 887 | 895 | - | 16.35 | CAAAGTCCA |
| L1MC1_3end | HNF4G | 887 | 895 | - | 16.35 | CAAAGTCCA |
| L1MC1_3end | F10B5.3 | 677 | 687 | - | 16.35 | TTTTCCAGAAT |
| L1MC1_3end | ZNF740 | 731 | 740 | - | 15.94 | CCCCCCCAAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
