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
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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 | TFEC | 404 | 411 | - | 15.88 | CACGTGAC |
| CR1-16_AMi | ZNF214 | 563 | 575 | - | 15.32 | TCATTAACGTGCT |
| CR1-16_AMi | FOXF2 | 434 | 442 | + | 15.28 | CGTAAACAA |
| CR1-16_AMi | CHES-1-like | 434 | 443 | + | 15.27 | CGTAAACAAA |
| CR1-16_AMi | FOXN3 | 435 | 442 | + | 15.19 | GTAAACAA |
| CR1-16_AMi | Foxj3 | 435 | 443 | + | 15.06 | GTAAACAAA |
| CR1-16_AMi | ARNT2 | 404 | 411 | + | 14.81 | GTCACGTG |
| CR1-16_AMi | FOXP2 | 556 | 564 | + | 14.61 | AGTAAACAG |
| CR1-16_AMi | Arntl | 404 | 411 | + | 14.56 | GTCACGTG |
| CR1-16_AMi | hif-1 | 404 | 412 | - | 14.55 | CCACGTGAC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
