CR1-1_Amn
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001336 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 813 |
| Kimura value | 30.90 |
| Tau index | 0.0000 |
| Description | CR1 (Chicken Repeat 1) retrotransposon, CR1-1_Amn subfamily |
| Comment | - |
| Sequence |
CGAGAAAGGACTTGGGGTNGTGGTGGATAAAACTCTAAAACCTTCGGCACAGTGCTTAACAGCAGTNAAAAAAGCAAACAAAATNCTGGGATGCATAAATAGAGGTATCGAATATAAGTCGGAGGAAATTATTCTAGCACTGTATAAGGGACTAGTGAGGCCACATTTGGAATACTGTGCGCAGTTCTGGTCACCTTATTATAAAAAGGATATTATAGAAATGGAGAAGGTACAGCGGAGGGCAACCAGAATGATACAGGGACTCGGGGATCTTAGTTATTCAGAAAGGTTAGAGAAACTAGGTCTGTATTCTTTGGAAAAGAGGAGATTAAGAGGGGACCTCACTGAGGTATACANAATTCTGAAGGGAATAGAGAGGATAGATGCTACAAGGCTATTTGAGCTAGTGTCAAATACAAGAACAAGGGGGCACGAACTNAAGCTAAGGAAGGGCCGGGCACTAAAGGAATTTAGGCGGAATTTCTTTACGCAGAGNATAGTTAATATATGGAACTCATTGCCACAGGANGTCGTGGAGGCNAGNANTATAACCGGGTTCAAAAGGGGACTGGATAAATTCATGGAGGATAGGTCCATTAGTGGCTATTAAACAGAACGGNTAAGGAATGNTGTCCCTAGCCTCTGNTTGTCGGAGGGTGGAGANGGATGGCAGGAGANAGATCACTTGATCATTACCTGTTAGGTTCACTCCCTCTGAAGCATCTGGTACTGGCCACTGTCGGNAGACAGGATACTGGGCTAGATGGACCNTTGGTCTGACCCAGTATGGCAGTTCTTATGTTCTTATGTTCT
|
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 |
|---|---|---|---|---|---|---|
| CR1-1_Amn | PK23829.1 | 570 | 576 | - | 12.16 | TTATCCA |
| CR1-1_Amn | TWIST1 | 720 | 727 | - | 12.15 | CCAGATGC |
| CR1-1_Amn | HSF1 | 508 | 514 | + | 12.13 | ATGGAAC |
| CR1-1_Amn | CTCFL | 424 | 431 | + | 12.13 | AAGGGGGC |
| CR1-1_Amn | MYB121 | 698 | 706 | - | 12.13 | AACCTAACA |
| CR1-1_Amn | Elf5 | 445 | 452 | + | 11.99 | AAGGAAGG |
| CR1-1_Amn | Hand1 | 301 | 309 | - | 11.98 | TACAGACCT |
| CR1-1_Amn | blmp-1 | 218 | 228 | + | 11.85 | GAAATGGAGAA |
| CR1-1_Amn | ZBTB14 | 454 | 461 | + | 11.85 | CCGGGCAC |
| CR1-1_Amn | FOXD2 | 70 | 80 | + | 11.83 | AAAAGCAAACA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
