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 | DOF4.2 | 203 | 213 | + | 12.47 | AAAAAGGATAT |
| CR1-1_Amn | AZF1 | 69 | 77 | + | 12.41 | AAAAAGCAA |
| CR1-1_Amn | DOF5.1 | 203 | 221 | + | 12.39 | AAAAAGGATATTATAGAAA |
| CR1-1_Amn | ZNF677 | 790 | 801 | - | 12.39 | CATAAGAACTGC |
| CR1-1_Amn | ETV2::FOXI1 | 745 | 755 | + | 12.34 | AGACAGGATAC |
| CR1-1_Amn | GAL4 | 120 | 134 | + | 12.28 | CGGAGGAAATTATTC |
| CR1-1_Amn | Prdm5 | 219 | 229 | - | 12.25 | CTTCTCCATTT |
| CR1-1_Amn | exd | 408 | 414 | - | 12.17 | TTTGACA |
| CR1-1_Amn | DMRT3 | 252 | 258 | - | 12.16 | TGTATCA |
| CR1-1_Amn | PK23829.1 | 24 | 30 | - | 12.16 | TTATCCA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
