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 | PRDM9 | 743 | 762 | + | 15.31 | GGGTGGGAGGGGGGTGAGGG |
| L1PB1_3end | MEIS1 | 497 | 505 | + | 15.29 | CATCAATCA |
| L1PB1_3end | Bcl11B | 176 | 184 | + | 15.12 | AAACCACAA |
| L1PB1_3end | CDX4 | 556 | 564 | + | 15.02 | GCCATAAAA |
| L1PB1_3end | tbx-37 | 659 | 670 | - | 14.98 | TGAGTGAGAACA |
| L1PB1_3end | ZNF140 | 368 | 386 | - | 14.88 | AGTAGTGGGATTGCTGGAT |
| L1PB1_3end | CUP2 | 398 | 408 | + | 14.67 | CAGAGGAAAAG |
| L1PB1_3end | KLF17 | 740 | 753 | - | 14.56 | CCCTCCCACCCTTT |
| L1PB1_3end | CDF3 | 64 | 71 | + | 14.46 | AAAAAGTG |
| L1PB1_3end | Nfat5 | 315 | 322 | + | 14.18 | ATGGAAAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
