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 | ZNF211 | 525 | 534 | - | 16.39 | TATATACCAC |
| L1PB1_3end | Klf15 | 744 | 765 | - | 16.37 | TATCCCTCACCCCCCTCCCACC |
| L1PB1_3end | HNF4A | 719 | 727 | - | 16.35 | CAAAGTCCA |
| L1PB1_3end | HNF4G | 719 | 727 | - | 16.35 | CAAAGTCCA |
| L1PB1_3end | cad | 555 | 565 | + | 16.08 | AGCCATAAAAA |
| L1PB1_3end | MAZ | 747 | 754 | - | 16.08 | CCCCTCCC |
| L1PB1_3end | PBX1 | 498 | 506 | + | 15.97 | ATCAATCAA |
| L1PB1_3end | ARF39 | 865 | 875 | - | 15.89 | GGGGAACAGGT |
| L1PB1_3end | ZNF148 | 745 | 754 | - | 15.59 | CCCCTCCCAC |
| L1PB1_3end | ceh-38 | 224 | 237 | + | 15.40 | AAAAATCAAAAAAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
