L1PB1_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000347 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Simiiformes |
| Length | 898 |
| Kimura value | 8.88 |
| Tau index | 0.9952 |
| Description | 3' end of L1 retrotransposon, L1PB1_3end subfamily |
| Comment | ORF2 ends at bp ~684 |
| Sequence |
CTAATATCCAGAATCTACAANGAACTCAAACAAATCAGCAAGAAAAAAACAAACAATCCCATCAAAAAGTGGGCTAAGGACATGAATAGACAATTCTCAAAAGAAGATATACAAATGGCCAACAAACATATGAAAAAATGCTCAACATCACTAATGATCAGGGAAATGCAAATCAAAACCACAATGCGATACCACCTTACTCCTGCAAGAATGGCCATAATCAAAAAATCAAAAAATAATAGATGTTGGCGTGGATGCGGTGAAAAGGGAACACTTCTACACTGCTGGTGGGAATGTAAACTAGTACAACCACTATGGAAAACAGTGTGGAGATTCCTTAAAGAACTAAAAGTAGAACTACCATTTGATCCAGCAATCCCACTACTGGGTATCTACCCAGAGGAAAAGAAGTCATTATACGAAAAAGATACTTGCACACGCATGTTTATAGCAGCACAATTCGCAATTGCAAAAATATGGAACCAGCCCAAATGCCCATCAATCAACGAGTGGATAAAGAAANTGTGGTATATATATACCATGGAATACTACTCAGCCATAAAAAGGAATGAANTAATGGCATTCGCAGCGACCTGGATGGAATTGGAGACTATTATTCTAAGTGAAGTAACTCAGGAATGGAAAACCAAACATCGTATGTTCTCACTCATAAGTGGGAGCTAAGCTATGAGGACGCAAAGGCATAAGAATGATACAATGGACTTTGGGGACTCGGGGGAAAGGGTGGGAGGGGGGTGAGGGATAAAAGACTACANATTGGGTACAGTGTACACTGCTCGGGTGATGGGTGCACCAAAATCTCANAAATCACCACTAAAGAACTTACTCATGTAACCAAACACCACCTGTTCCCCAAAAACCTATNGAAATAAAAAAA
|
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 |
|---|---|---|---|---|---|---|
| L1PB1_3end | Nfat5 | 639 | 646 | + | 14.18 | ATGGAAAA |
| L1PB1_3end | snai-1 | 864 | 870 | + | 14.14 | CACCTGT |
| L1PB1_3end | ZNF8 | 528 | 547 | + | 14.13 | GTATATATATACCATGGAAT |
| L1PB1_3end | sna | 863 | 871 | - | 14.09 | AACAGGTGG |
| L1PB1_3end | HOXD9 | 556 | 564 | + | 14.08 | GCCATAAAA |
| L1PB1_3end | sage | 860 | 870 | + | 14.05 | ACACCACCTGT |
| L1PB1_3end | Nfatc2 | 638 | 645 | + | 14.03 | AATGGAAA |
| L1PB1_3end | DOF3.6 | 220 | 240 | - | 14.03 | ATTATTTTTTGATTTTTTGAT |
| L1PB1_3end | SP4 | 746 | 754 | + | 13.83 | TGGGAGGGG |
| L1PB1_3end | POU2F3 | 165 | 173 | + | 13.73 | AATGCAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
