CR1-12_AMi
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001300 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 614 |
| Kimura value | 33.40 |
| Tau index | 0.0000 |
| Description | Non-LTR retrotransposon. |
| Comment | Fragment. |
| Sequence |
AAAAAAGGAANCTTACNAGAAATGGAAANTTGGGNAAACAANCAGGGAGGAGTATAAGGGCATTGCTAAGGCTTGCAGGGAGAAAGTAGGAAGGCAAAACGCAATGAGTTAATGCTAGCCAAAGGGGTTAAGGGGAATAAGAAGGGCTTTTACAAATATATCAGGGGGAAAAGAAATACTAGAGAGAAAGTAGGTCCATTAATAAATGAGGGAGGGAATTAGTAATGATGACTCTAAAATGGCTGAGATACTGAACTGCTTTTTAAATCTGTCTTTAACAAGAAAAAGAAAAGAATGGGCAGACAATTAGGAAGGAGGTGTAAAACAGCTATTGATAAAGAGCAGGTAAGGGAATACTTGGAAAACTGAACGTATACAAATCAGCGGGTCCGGATGACATGCATCCCAGGGTGCTGAGGGAATTAGCTAATGAACTACNGAACCACTGGCAATTATTTTTGAAAAGTCATGGAGAACTGGGGAGGTCCAGAGGACTGGAGAAAAGCAAATGTAGTACCNATCTTCAAAAAAGGGAAGAAGAGNGATCCNGGCAATTACAGCCAGTCAGTCTNACCTCAATCCCTGGNAAAATAATGGAACAAATATTAAAGGAA
|
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 |
|---|---|---|---|---|---|---|
| CR1-12_AMi | Nr2F6 | 482 | 496 | + | 2.50 | GAGGTCCAGAGGACT |
| CR1-12_AMi | IXR1 | 254 | 268 | - | 2.49 | ATTTAAAAAGCAGTT |
| CR1-12_AMi | BPC1 | 280 | 303 | + | 2.03 | AAGAAAAAGAAAAGAATGGGCAGA |
| CR1-12_AMi | RXRB | 124 | 137 | + | 0.78 | GGGGTTAAGGGGAA |
| CR1-12_AMi | RXRG | 124 | 137 | + | 0.40 | GGGGTTAAGGGGAA |
| CR1-12_AMi | EWSR1-FLI1 | 81 | 98 | + | -9.92 | AGAAAGTAGGAAGGCAAA |
| CR1-12_AMi | BPC5 | 277 | 306 | + | -47.80 | AACAAGAAAAAGAAAAGAATGGGCAGACAA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
