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 | Klf15 | 735 | 756 | - | 18.93 | CCCCCCTCCCACCCTTTCCCCC |
| L1PB1_3end | ZNF558 | 68 | 96 | + | 18.85 | AGTGGGCTAAGGACATGAATAGACAATTC |
| L1PB1_3end | ZNF320 | 726 | 745 | + | 18.46 | TGGGGACTCGGGGGAAAGGG |
| L1PB1_3end | Kah | 862 | 871 | + | 18.21 | ACCACCTGTT |
| L1PB1_3end | PRDM9 | 735 | 754 | + | 17.35 | GGGGGAAAGGGTGGGAGGGG |
| L1PB1_3end | ZNF211 | 533 | 542 | + | 16.76 | TATATACCAT |
| L1PB1_3end | Klf6-7-like | 736 | 755 | - | 16.72 | CCCCCTCCCACCCTTTCCCC |
| L1PB1_3end | SPT15 | 527 | 537 | + | 16.56 | GGTATATATAT |
| L1PB1_3end | SPT15 | 530 | 540 | - | 16.56 | GGTATATATAT |
| L1PB1_3end | D19B | 383 | 394 | - | 16.40 | AGATACCCAGTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
