CR1-16_AMi
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001265 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 851 |
| Kimura value | 31.52 |
| Tau index | 0.0000 |
| Description | Non-LTR retrotransposon. |
| Comment | - |
| Sequence |
AACTTATTGTAACATGGAGCATTATTTTGAAAAGTCACGAAAANTGGGNAGGTACCGGAAGATTGGAGAAAAGCAAACGCGCTGATGTCTTCAAAAAAGGAAGGAGAGTGATCCTGGCAATTACCATCCTCAAGTCTTAACTTCTATCCCTAGTAAAATAATGGAACAAATATTAAGAGGGAGGAAAAAATCACTAAACATCTAGAGGATAACGGAACCATGAGCAATAAGCAGCATGGGTTTATAAAGAACAAATCTTGCCAGACAAACTTGATTGCTTTTTTTGATAGAATTACAAAATTAGTGGATGAAGGGATGCAATATATTTGGATTTTAGTAAAGCATTTGATACAGTGTCTCACATATCTTAAAATTAATTCAAATTGGCTTGGATATGAGCACTGTCACGTGGACTGAAAACTGGCTGAAGGACCGTAAACAAAGGGTAATGATAAACGGCAATGTATCGAGTTGGGGGGAGGTGTCTAGGGGTACTGCAGGGATGGTGTTAGGTCTGGTCTTATTTAACATCTTCATTAATGATCTGGAAGAGGGAGTAAACAGCACGTTAATGAAATTCGCAGATGATACTAAATTGGGAGGAGTTGCAAACACCAGTGAGGACAGAGAAATAATACAAAGGGACCTAGAGAGATTAGAAAGGAAATAACAAAATGAGATTAACTTGGAAAAATGCAGCTAATATTCACTGGGGAAAATCCAATGGAAGAGGAAACNTGGAAAGCAGTAATGANAGAGACCTNGAGGCGATAGCGGACAGCAAATTAGATATGAGTTGCAATGTGATATGGCAGCAAAAGGCCAGTGCAATTTTGGGCTGCATATGCGGA
|
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 |
|---|---|---|---|---|---|---|
| CR1-16_AMi | dsf | 30 | 37 | + | 14.52 | AAAAGTCA |
| CR1-16_AMi | PIF5 | 405 | 412 | + | 14.49 | TCACGTGG |
| CR1-16_AMi | daf-12 | 71 | 84 | - | 14.41 | CAGCGCGTTTGCTT |
| CR1-16_AMi | Mnt | 406 | 412 | - | 14.31 | CCACGTG |
| CR1-16_AMi | BHLH72 | 404 | 412 | + | 14.26 | GTCACGTGG |
| CR1-16_AMi | TFEB | 404 | 411 | - | 14.25 | CACGTGAC |
| CR1-16_AMi | E(spl)mdelta-HLH | 403 | 411 | - | 14.16 | CACGTGACA |
| CR1-16_AMi | slp2 | 435 | 442 | + | 14.11 | GTAAACAA |
| CR1-16_AMi | Usf | 404 | 411 | - | 14.09 | CACGTGAC |
| CR1-16_AMi | ZNF281 | 475 | 484 | + | 14.08 | GGGGGAGGTG |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
