CR1-13_AMi
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0001291 |
|---|---|
| TE superfamily | CR1 |
| TE class | LINE |
| Species | Amniota |
| Length | 724 |
| Kimura value | 35.73 |
| Tau index | 0.0000 |
| Description | Non-LTR retrotransposon. |
| Comment | Fragment. |
| Sequence |
AAAAAGGGATTAGAAAATAATACTGAANATANTATAATGCCATTATATAAATCGATGGTGCACTTCACTTGAATACCGCGTTCAGTTCTGGTCACCCTATCTCAAAGAAATANAGCAGAAATAAGGAGTTCGAGACGGGCGACGAAAATGATTAGAGGCAGAGAGACTTCCATATGAAGAGAGANTGAAGACTGGACTGTTTAGTTTAGAGAGGAGACGAATGAGGGGACATGATAGAGGTATACAAAATAATGAATGGACAGGGGAGCAATCGGGAGCTCCTATTTACCCTTTCTCATAATACAAGAACAAGGACATTCAATGAAATTGAAAGGCAACAATTTAAAACTGATAAAAGGAAATACTTTTTTTACACAATGCATAATTAACCTGTGGAACTCACTGCCACAAGATATCACTGAGGCCAAGAGCTTAGCAGGATTCAAAAAGGATTAGACATTTATATGGATAACGAGAACATCCGCAGTTACATTAGATAGGATAAAAAATATAAGGGATATAANCCTCATGCTTCAGGGCATAAGCCAACCACTAACTGACGGGGTTAGGAAGAAACTTCCCCTATGGGCAGGTTATTCCATAATTGCCATTATGGGGNTTTTGCACCTTCCTCTGAAGCATCTGGTACTGGCCACTGTCAGAGACAGGATACTGGACTAGATGGACCACTGGTCATTCCACTATNGCGAATTAATTGTTCTTA
|
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 |
|---|---|---|---|---|---|---|
| CR1-13_AMi | BPC1 | 161 | 184 | + | -1.67 | GAGAGACTTCCATATGAAGAGAGA |
| CR1-13_AMi | IRF8 | 323 | 335 | + | -2.81 | TGAAATTGAAAGG |
| CR1-13_AMi | Rarg | 421 | 435 | + | -3.43 | GAGGCCAAGAGCTTA |
| CR1-13_AMi | Rarg | 387 | 401 | - | -3.77 | GAGTTCCACAGGTTA |
| CR1-13_AMi | Rarb | 420 | 435 | + | -3.86 | TGAGGCCAAGAGCTTA |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
